Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A11
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: 113101708
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2797742 characters in sequence are not A, C, G, or T
File 66 of 352
Found at i:20649611 original size:46 final size:47
Alignment explanation
Indices: 20649526--20649620 Score: 122
Period size: 46 Copynumber: 2.0 Consensus size: 47
20649516 ATTAGCCACT
* *
20649526 TATAAATAATTAATAATAAATAATATATATTTTATTTAAA-A-TTAG
1 TATAAATAATTAATAATAAATAATATATAATTTAATTAAATATTTAG
* * *
20649571 TATAAATAATTTCATAATAAATATTATGTAATTTAATTAAATATTTAG
1 TATAAATAA-TTAATAATAAATAATATATAATTTAATTAAATATTTAG
20649619 TA
1 TA
20649621 AGCCAAAATA
Statistics
Matches: 42, Mismatches: 5, Indels: 3
0.84 0.10 0.06
Matches are distributed among these distances:
45 9 0.21
46 26 0.62
47 1 0.02
48 6 0.14
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (47 bp):
TATAAATAATTAATAATAAATAATATATAATTTAATTAAATATTTAG
Found at i:20652045 original size:38 final size:37
Alignment explanation
Indices: 20651954--20652045 Score: 121
Period size: 38 Copynumber: 2.4 Consensus size: 37
20651944 CCCTACTAAG
* * *
20651954 TACATGTTAAGCATGACTATTGCTAGTGTTAAATTGAA
1 TACATGTTAAGCATG-TTATTGCTAATGTTAAATTAAA
* *
20651992 TACATGATAAGCATGTTGATTGCTAATGTTGAATTAAA
1 TACATGTTAAGCATGTT-ATTGCTAATGTTAAATTAAA
20652030 TACATGTTAAGCATGT
1 TACATGTTAAGCATGT
20652046 CATACTGGAT
Statistics
Matches: 47, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
37 1 0.02
38 46 0.98
ACGTcount: A:0.35, C:0.10, G:0.18, T:0.37
Consensus pattern (37 bp):
TACATGTTAAGCATGTTATTGCTAATGTTAAATTAAA
Found at i:20655273 original size:103 final size:102
Alignment explanation
Indices: 20655095--20655300 Score: 376
Period size: 103 Copynumber: 2.0 Consensus size: 102
20655085 TAAAAGGGTG
* *
20655095 AGCAAGAAAGGGTTACTAAAGGGGGAAAATAGGGATTATACGATGTGCCAAACTAATTTCGTGCT
1 AGCAAGAAAGGGTTACTAAAAGGGGAAAATAGGGATAATACGATGTGCCAAACTAATTTCGTGCT
*
20655160 TGAAACTATTTTGATGCTCCTTGTTCTTGAATCTCAT
66 TGAAACTATTTTGATGCTCCTTGTTCTTAAATCTCAT
20655197 AGCAAGAAAGGGTTACTAAAAGGGGAAAATAGGGGATAATACGATGTGCCAAACTAATTTCGTGC
1 AGCAAGAAAGGGTTACTAAAAGGGGAAAATA-GGGATAATACGATGTGCCAAACTAATTTCGTGC
20655262 TTGAAACTATTTTGATGCTCCTTGTTCTTAAATCTCAT
65 TTGAAACTATTTTGATGCTCCTTGTTCTTAAATCTCAT
20655300 A
1 A
20655301 CTAACCTTAA
Statistics
Matches: 100, Mismatches: 3, Indels: 1
0.96 0.03 0.01
Matches are distributed among these distances:
102 30 0.30
103 70 0.70
ACGTcount: A:0.33, C:0.15, G:0.22, T:0.31
Consensus pattern (102 bp):
AGCAAGAAAGGGTTACTAAAAGGGGAAAATAGGGATAATACGATGTGCCAAACTAATTTCGTGCT
TGAAACTATTTTGATGCTCCTTGTTCTTAAATCTCAT
Found at i:20656746 original size:85 final size:86
Alignment explanation
Indices: 20656632--20656800 Score: 234
Period size: 85 Copynumber: 2.0 Consensus size: 86
20656622 CAAATAAGTG
* * * * *
20656632 GTGGCTCGTCCACAAAACCCAGTGGCAGTTTGTGTAATCTGCAAA-TATGTTGTGCACTCACAAC
1 GTGGCTCGTCCACAAAACCCAATGGCAGTTTGTGTAACCT-AAAACCATATTGTGCACTCACAAC
*
20656696 AAGTGGCAGTAACTGCAAATAT
65 AAGTGGCAATAACTGCAAATAT
* * *
20656718 GTGGCTTGTCCAC-AAACCCAATGGCAGTTTGTTTAACCTAAAACCATATTGTGCACTCACAATA
1 GTGGCTCGTCCACAAAACCCAATGGCAGTTTGTGTAACCTAAAACCATATTGTGCACTCACAACA
20656782 AGTGGCAATAACTGCAAAT
66 AGTGGCAATAACTGCAAAT
20656801 GATTTTATCT
Statistics
Matches: 73, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
84 3 0.04
85 58 0.79
86 12 0.16
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (86 bp):
GTGGCTCGTCCACAAAACCCAATGGCAGTTTGTGTAACCTAAAACCATATTGTGCACTCACAACA
AGTGGCAATAACTGCAAATAT
Found at i:20658862 original size:38 final size:38
Alignment explanation
Indices: 20658789--20658900 Score: 134
Period size: 38 Copynumber: 2.9 Consensus size: 38
20658779 AACTACTAAG
* * * * * *
20658789 TACATGTTAAGCGTGTCTACTGCTAGTGTTAAATTGAA
1 TACATGATAAGCATGTTTACTGCCAATGTTGAATTGAA
*
20658827 TACATGATAAGCATGTTTATTGCCAATGTTGAATTGAA
1 TACATGATAAGCATGTTTACTGCCAATGTTGAATTGAA
* * *
20658865 TACATGTTAAGCATGTTTACTGCTAGTGTTGAATTG
1 TACATGATAAGCATGTTTACTGCCAATGTTGAATTG
20658901 TTCATAGCAT
Statistics
Matches: 63, Mismatches: 11, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
38 63 1.00
ACGTcount: A:0.29, C:0.12, G:0.21, T:0.38
Consensus pattern (38 bp):
TACATGATAAGCATGTTTACTGCCAATGTTGAATTGAA
Found at i:20681746 original size:47 final size:47
Alignment explanation
Indices: 20681685--20681857 Score: 201
Period size: 47 Copynumber: 3.7 Consensus size: 47
20681675 TTCAAATTTG
*
20681685 GGCATCCGAACTCGTAGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
* * * * *
20681732 GGCATCC-AAGCTCGTTGAGTTGAGTCCGAGTTCACT--TATGGATGCGA
1 GGCATCCGAA-CTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTA-ACTA
* * *
20681779 -ACGTCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTA
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
*
20681825 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTC
1 GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTC
20681858 ACTTATGGAT
Statistics
Matches: 103, Mismatches: 16, Indels: 14
0.77 0.12 0.11
Matches are distributed among these distances:
45 1 0.01
46 35 0.34
47 66 0.64
48 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.29, T:0.27
Consensus pattern (47 bp):
GGCATCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTA
Found at i:20681804 original size:46 final size:45
Alignment explanation
Indices: 20681740--20681911 Score: 206
Period size: 46 Copynumber: 3.7 Consensus size: 45
20681730 TAGGCATCCA
20681740 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACGTCCG
* * * *
20681786 AACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCATCCG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAAC---G--TCCG
*
20681833 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGTGAACGCCCG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATG-GAACGTCCG
*
20681879 AGCTCGTTGAGTTGAGTCCGAGTTCGCTTATGG
1 AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGG
20681912 GCGGGTTACA
Statistics
Matches: 107, Mismatches: 10, Indels: 18
0.79 0.07 0.13
Matches are distributed among these distances:
42 3 0.03
43 4 0.04
45 3 0.03
46 59 0.55
47 28 0.26
48 3 0.03
50 4 0.04
51 3 0.03
ACGTcount: A:0.20, C:0.20, G:0.31, T:0.29
Consensus pattern (45 bp):
AGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGGAACGTCCG
Found at i:20681848 original size:93 final size:93
Alignment explanation
Indices: 20681689--20681904 Score: 378
Period size: 93 Copynumber: 2.3 Consensus size: 93
20681679 AATTTGGGCA
*
20681689 TCCGAACTCGTAGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCAAGCTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCAAGCTCGTTGAGTTG
20681754 AGTCCGAGTTCACTTATGGATGCGAACG
66 AGTCCGAGTTCACTTATGGATGCGAACG
* *
20681782 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAGATGTAACTAGGCATCCGAGCTCGTTGAGTTG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCAAGCTCGTTGAGTTG
*
20681847 AGTCCGAGTTCACTTATGGATGTGAACG
66 AGTCCGAGTTCACTTATGGATGCGAACG
* *
20681875 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCG
20681905 CTTATGGGCG
Statistics
Matches: 117, Mismatches: 6, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
93 117 1.00
ACGTcount: A:0.22, C:0.21, G:0.30, T:0.28
Consensus pattern (93 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCATCCAAGCTCGTTGAGTTG
AGTCCGAGTTCACTTATGGATGCGAACG
Found at i:20704109 original size:16 final size:16
Alignment explanation
Indices: 20704063--20704112 Score: 59
Period size: 15 Copynumber: 3.2 Consensus size: 16
20704053 TTTAACTAAA
20704063 AAAGTATTATTTATTTT
1 AAAGTA-TATTTATTTT
* *
20704080 TAA-TATAATT-TTTT
1 AAAGTATATTTATTTT
20704094 AAAGTATATTTATTTT
1 AAAGTATATTTATTTT
20704110 AAA
1 AAA
20704113 AAAACACTAT
Statistics
Matches: 27, Mismatches: 4, Indels: 5
0.75 0.11 0.14
Matches are distributed among these distances:
14 6 0.22
15 10 0.37
16 9 0.33
17 2 0.07
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (16 bp):
AAAGTATATTTATTTT
Found at i:20712653 original size:23 final size:23
Alignment explanation
Indices: 20712610--20712653 Score: 63
Period size: 23 Copynumber: 1.9 Consensus size: 23
20712600 AGGTAGAAAA
*
20712610 TTTCTAAAAAAACCTATATTATG
1 TTTCTAAAAAAACCTACATTATG
20712633 TTTCTAAAAAATA-CTACATTA
1 TTTCTAAAAAA-ACCTACATTA
20712654 ACATAATCAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
23 18 0.95
24 1 0.05
ACGTcount: A:0.45, C:0.14, G:0.02, T:0.39
Consensus pattern (23 bp):
TTTCTAAAAAAACCTACATTATG
Found at i:20715698 original size:85 final size:85
Alignment explanation
Indices: 20715595--20715755 Score: 238
Period size: 86 Copynumber: 1.9 Consensus size: 85
20715585 CACATCCATA
* * *
20715595 AGGTTGAGTTCTTACTCTTAATGAA-TTCATA-GCCAGGGTTTGGGTGGTCCT-CTTGAGATGGA
1 AGGTTGAGTTCTTACTCTTAAT-AAGTTCATATACCAGAGTTTGGGTGATCCTAC-TGAGATGGA
20715657 CTTGATGAATTCATTGACATGT
64 CTTGATGAATTCATTGACATGT
*
20715679 AGGTTGAGTTTCTTACTCTTAATAAGTTCATATATCAGAGTTTGGGTGATCCTACTGAGATGGAC
1 AGGTTGAG-TTCTTACTCTTAATAAGTTCATATACCAGAGTTTGGGTGATCCTACTGAGATGGAC
20715744 TTGATGAATTCA
65 TTGATGAATTCA
20715756 CCAAATTTAA
Statistics
Matches: 69, Mismatches: 4, Indels: 6
0.87 0.05 0.08
Matches are distributed among these distances:
84 10 0.14
85 20 0.29
86 38 0.55
87 1 0.01
ACGTcount: A:0.25, C:0.14, G:0.24, T:0.37
Consensus pattern (85 bp):
AGGTTGAGTTCTTACTCTTAATAAGTTCATATACCAGAGTTTGGGTGATCCTACTGAGATGGACT
TGATGAATTCATTGACATGT
Found at i:20716232 original size:23 final size:22
Alignment explanation
Indices: 20716197--20716248 Score: 70
Period size: 23 Copynumber: 2.4 Consensus size: 22
20716187 ACGTTAGTAA
* *
20716197 TACAAA-TTTATTTTCAGCAGT
1 TACAAACTTTATTTCCAACAGT
20716218 TACAAACTATTATTTCCAACAGT
1 TACAAACT-TTATTTCCAACAGT
20716241 TACAAACT
1 TACAAACT
20716249 GTTTCTTACA
Statistics
Matches: 27, Mismatches: 2, Indels: 2
0.87 0.06 0.06
Matches are distributed among these distances:
21 6 0.22
22 1 0.04
23 20 0.74
ACGTcount: A:0.38, C:0.19, G:0.06, T:0.37
Consensus pattern (22 bp):
TACAAACTTTATTTCCAACAGT
Found at i:20718508 original size:28 final size:29
Alignment explanation
Indices: 20718451--20718517 Score: 102
Period size: 28 Copynumber: 2.3 Consensus size: 29
20718441 TAATTTACTT
*
20718451 AGTAAATTAAGATTTTTTTTCTTTTTCCA
1 AGTAAATTAAGATTTTTTTTCTTTTCCCA
20718480 AGTAAATTAAGA-TTTTTTTCTTTTCCCA
1 AGTAAATTAAGATTTTTTTTCTTTTCCCA
20718508 ACG-AAATTAA
1 A-GTAAATTAA
20718518 TACTCGGCTA
Statistics
Matches: 36, Mismatches: 1, Indels: 3
0.90 0.03 0.08
Matches are distributed among these distances:
28 23 0.64
29 13 0.36
ACGTcount: A:0.33, C:0.12, G:0.07, T:0.48
Consensus pattern (29 bp):
AGTAAATTAAGATTTTTTTTCTTTTCCCA
Found at i:20728233 original size:21 final size:20
Alignment explanation
Indices: 20728209--20728249 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 20
20728199 TAAAATCAAG
* *
20728209 GTTTGGTTTGAGAAGCTGCTT
1 GTTTGGGTTGAAAAG-TGCTT
20728230 GTTTGGGTTGAAAAGTGCTT
1 GTTTGGGTTGAAAAGTGCTT
20728250 TTGAACCTCA
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 5 0.28
21 13 0.72
ACGTcount: A:0.17, C:0.07, G:0.34, T:0.41
Consensus pattern (20 bp):
GTTTGGGTTGAAAAGTGCTT
Found at i:20728762 original size:20 final size:21
Alignment explanation
Indices: 20728721--20728768 Score: 57
Period size: 19 Copynumber: 2.4 Consensus size: 21
20728711 ATTTTTTTTA
*
20728721 TTTTTATATATTCTTTAGATT
1 TTTTTATATATTCTTTAAATT
*
20728742 TTTTTA-ATATT-TTTAAA-A
1 TTTTTATATATTCTTTAAATT
20728760 TTTTTATAT
1 TTTTTATAT
20728769 TTTTTTTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
18 6 0.25
19 7 0.29
20 5 0.21
21 6 0.25
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.67
Consensus pattern (21 bp):
TTTTTATATATTCTTTAAATT
Found at i:20728774 original size:20 final size:20
Alignment explanation
Indices: 20728720--20728781 Score: 54
Period size: 19 Copynumber: 3.1 Consensus size: 20
20728710 AATTTTTTTT
* * *
20728720 ATTTTTATATATTCTTT-AG
1 ATTTTTATATTTTTTTTAAA
* * *
20728739 ATTTTTTTAATATTTTTAAA
1 ATTTTTATATTTTTTTTAAA
20728759 ATTTTTATATTTTTTTTTAAA
1 ATTTTTATA-TTTTTTTTAAA
20728780 AT
1 AT
20728782 GGACCAAGAG
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
19 12 0.38
20 9 0.28
21 11 0.34
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.66
Consensus pattern (20 bp):
ATTTTTATATTTTTTTTAAA
Found at i:20733439 original size:3 final size:3
Alignment explanation
Indices: 20733431--20733471 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
20733421 TTTAGTTTCC
20733431 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
20733472 ACCCCTTTTC
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:20738924 original size:23 final size:23
Alignment explanation
Indices: 20738897--20738941 Score: 81
Period size: 23 Copynumber: 2.0 Consensus size: 23
20738887 CTTTGGGGTA
*
20738897 CTTGGTGCTTGTTCAAGACATTG
1 CTTGGTGCTTGTTCAAAACATTG
20738920 CTTGGTGCTTGTTCAAAACATT
1 CTTGGTGCTTGTTCAAAACATT
20738942 TTCTTACCAT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.20, C:0.18, G:0.22, T:0.40
Consensus pattern (23 bp):
CTTGGTGCTTGTTCAAAACATTG
Found at i:20743179 original size:25 final size:25
Alignment explanation
Indices: 20743151--20743202 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
20743141 AAGACTCGAG
20743151 AAAGAGACATCCAAGCTTCAAAGTC
1 AAAGAGACATCCAAGCTTCAAAGTC
20743176 AAAGAGACATCCAAGCTTCAAAGTC
1 AAAGAGACATCCAAGCTTCAAAGTC
20743201 AA
1 AA
20743203 GCGAAAAGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.46, C:0.23, G:0.15, T:0.15
Consensus pattern (25 bp):
AAAGAGACATCCAAGCTTCAAAGTC
Found at i:20748805 original size:12 final size:12
Alignment explanation
Indices: 20748788--20748822 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
20748778 CGATATCTCA
20748788 ATTTCAATTCAC
1 ATTTCAATTCAC
20748800 ATTTCAATTCAC
1 ATTTCAATTCAC
20748812 ATTTCAATTCA
1 ATTTCAATTCA
20748823 TAATTTCACT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.23, G:0.00, T:0.43
Consensus pattern (12 bp):
ATTTCAATTCAC
Found at i:20748951 original size:15 final size:15
Alignment explanation
Indices: 20748931--20748966 Score: 72
Period size: 15 Copynumber: 2.4 Consensus size: 15
20748921 TTTTAGCAAA
20748931 TTCATGAACCTTAAG
1 TTCATGAACCTTAAG
20748946 TTCATGAACCTTAAG
1 TTCATGAACCTTAAG
20748961 TTCATG
1 TTCATG
20748967 CTTCAAATCT
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 21 1.00
ACGTcount: A:0.31, C:0.19, G:0.14, T:0.36
Consensus pattern (15 bp):
TTCATGAACCTTAAG
Found at i:20750108 original size:16 final size:17
Alignment explanation
Indices: 20750077--20750109 Score: 50
Period size: 16 Copynumber: 2.0 Consensus size: 17
20750067 AATTTTTATC
20750077 CAATTTATACCCTAATT
1 CAATTTATACCCTAATT
*
20750094 CAATTTA-ATCCTAATT
1 CAATTTATACCCTAATT
20750110 AACTCATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 8 0.53
17 7 0.47
ACGTcount: A:0.36, C:0.21, G:0.00, T:0.42
Consensus pattern (17 bp):
CAATTTATACCCTAATT
Found at i:20750605 original size:3 final size:3
Alignment explanation
Indices: 20750597--20750638 Score: 84
Period size: 3 Copynumber: 14.0 Consensus size: 3
20750587 ATATATTAGT
20750597 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
1 TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA
20750639 ATATCTATTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 39 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:20751082 original size:11 final size:11
Alignment explanation
Indices: 20751057--20751094 Score: 60
Period size: 11 Copynumber: 3.5 Consensus size: 11
20751047 TATTTATTTC
20751057 ATAATATAA-T
1 ATAATATAATT
20751067 ATAATATAATT
1 ATAATATAATT
*
20751078 ATAATATTATT
1 ATAATATAATT
20751089 ATAATA
1 ATAATA
20751095 ATTTAACATA
Statistics
Matches: 26, Mismatches: 1, Indels: 1
0.93 0.04 0.04
Matches are distributed among these distances:
10 9 0.35
11 17 0.65
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (11 bp):
ATAATATAATT
Found at i:20766786 original size:32 final size:32
Alignment explanation
Indices: 20766750--20766815 Score: 123
Period size: 32 Copynumber: 2.1 Consensus size: 32
20766740 AAATGGTTGA
*
20766750 ATTTCAAATTTCGGGATTAAGGACTAAATTGT
1 ATTTCAAATTTCAGGATTAAGGACTAAATTGT
20766782 ATTTCAAATTTCAGGATTAAGGACTAAATTGT
1 ATTTCAAATTTCAGGATTAAGGACTAAATTGT
20766814 AT
1 AT
20766816 AAAGGTTAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
32 33 1.00
ACGTcount: A:0.36, C:0.09, G:0.17, T:0.38
Consensus pattern (32 bp):
ATTTCAAATTTCAGGATTAAGGACTAAATTGT
Found at i:20768315 original size:17 final size:18
Alignment explanation
Indices: 20768276--20768316 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
20768266 CCTAAAATTT
*
20768276 CACACGTCCGTGTGGGCC
1 CACACGCCCGTGTGGGCC
*
20768294 TACACGCCCGTGT-GGCC
1 CACACGCCCGTGTGGGCC
20768311 CACACG
1 CACACG
20768317 TTTCAATTTG
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
17 9 0.45
18 11 0.55
ACGTcount: A:0.15, C:0.41, G:0.29, T:0.15
Consensus pattern (18 bp):
CACACGCCCGTGTGGGCC
Found at i:20774252 original size:30 final size:30
Alignment explanation
Indices: 20774216--20774274 Score: 100
Period size: 30 Copynumber: 2.0 Consensus size: 30
20774206 TTATTAAAAA
* *
20774216 GAATAACTATTAATCTTGATAAAGTTAACT
1 GAATAACCATTAATCTTGATAAAATTAACT
20774246 GAATAACCATTAATCTTGATAAAATTAAC
1 GAATAACCATTAATCTTGATAAAATTAAC
20774275 CGTTATAGGT
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.46, C:0.12, G:0.08, T:0.34
Consensus pattern (30 bp):
GAATAACCATTAATCTTGATAAAATTAACT
Found at i:20774272 original size:15 final size:15
Alignment explanation
Indices: 20774224--20774273 Score: 50
Period size: 15 Copynumber: 3.3 Consensus size: 15
20774214 AAGAATAACT
20774224 ATTAATCTTGATAAA
1 ATTAATCTTGATAAA
* *
20774239 GTTAA-C-TGAATAACC
1 ATTAATCTTG-ATAA-A
20774254 ATTAATCTTGATAAA
1 ATTAATCTTGATAAA
20774269 ATTAA
1 ATTAA
20774274 CCGTTATAGG
Statistics
Matches: 27, Mismatches: 4, Indels: 8
0.69 0.10 0.21
Matches are distributed among these distances:
13 2 0.07
14 5 0.19
15 13 0.48
16 5 0.19
17 2 0.07
ACGTcount: A:0.46, C:0.10, G:0.08, T:0.36
Consensus pattern (15 bp):
ATTAATCTTGATAAA
Found at i:20775824 original size:30 final size:30
Alignment explanation
Indices: 20775790--20775850 Score: 122
Period size: 30 Copynumber: 2.0 Consensus size: 30
20775780 ATGACGCCAC
20775790 GTCATCTGTATCCCTTTCCAATAGTTTTAT
1 GTCATCTGTATCCCTTTCCAATAGTTTTAT
20775820 GTCATCTGTATCCCTTTCCAATAGTTTTAT
1 GTCATCTGTATCCCTTTCCAATAGTTTTAT
20775850 G
1 G
20775851 CCACATCCGT
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 31 1.00
ACGTcount: A:0.20, C:0.23, G:0.11, T:0.46
Consensus pattern (30 bp):
GTCATCTGTATCCCTTTCCAATAGTTTTAT
Found at i:20779646 original size:31 final size:31
Alignment explanation
Indices: 20779592--20779651 Score: 77
Period size: 31 Copynumber: 1.9 Consensus size: 31
20779582 TTTATTACTT
* *
20779592 TATTTCAATATCTTTATCGTATTTGTTTTTG
1 TATTTCAATATCTTTATCATATTTATTTTTG
*
20779623 TATTTCAATAT-TGTTATTATATTTATTTT
1 TATTTCAATATCT-TTATCATATTTATTTT
20779652 ATTATTATTA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
30 1 0.04
31 24 0.96
ACGTcount: A:0.23, C:0.07, G:0.07, T:0.63
Consensus pattern (31 bp):
TATTTCAATATCTTTATCATATTTATTTTTG
Found at i:20779649 original size:23 final size:25
Alignment explanation
Indices: 20779623--20779682 Score: 61
Period size: 23 Copynumber: 2.4 Consensus size: 25
20779613 TTTGTTTTTG
*
20779623 TATTTCAATATTGTTAT-TA-TATT
1 TATTTCAATATTATTATATAGTATT
* *
20779646 TATTTTATTATTATTATAATAGTATT
1 TATTTCAATATTATTAT-ATAGTATT
*
20779672 TATTTCTATAT
1 TATTTCAATAT
20779683 ATGTACATTG
Statistics
Matches: 28, Mismatches: 6, Indels: 3
0.76 0.16 0.08
Matches are distributed among these distances:
23 14 0.50
25 2 0.07
26 12 0.43
ACGTcount: A:0.32, C:0.03, G:0.03, T:0.62
Consensus pattern (25 bp):
TATTTCAATATTATTATATAGTATT
Found at i:20779826 original size:12 final size:11
Alignment explanation
Indices: 20779795--20779854 Score: 51
Period size: 9 Copynumber: 5.9 Consensus size: 11
20779785 TGTTATATAC
20779795 GTATATATT-T
1 GTATATATTAT
20779805 -TATATATTAT
1 GTATATATTAT
20779815 GTATATTATTAT
1 GTATA-TATTAT
*
20779827 -T-TTTATTA-
1 GTATATATTAT
*
20779835 -TACATATTAT
1 GTATATATTAT
20779845 GTATATATTA
1 GTATATATTA
20779855 AATATCGTAT
Statistics
Matches: 40, Mismatches: 4, Indels: 11
0.73 0.07 0.20
Matches are distributed among these distances:
8 1 0.03
9 18 0.45
10 2 0.05
11 13 0.32
12 6 0.15
ACGTcount: A:0.35, C:0.02, G:0.05, T:0.58
Consensus pattern (11 bp):
GTATATATTAT
Found at i:20779934 original size:21 final size:20
Alignment explanation
Indices: 20779891--20779955 Score: 62
Period size: 21 Copynumber: 3.2 Consensus size: 20
20779881 CATATATGCA
* *
20779891 TATATCTTTAATATATATAAG
1 TATATCTTTATTA-ATATTAG
20779912 TATATCTTTATGTAATATTAG
1 TATATCTTTAT-TAATATTAG
* *
20779933 TAT-T-ATTATTAATATTAA
1 TATATCTTTATTAATATTAG
20779951 TATAT
1 TATAT
20779956 TTTTTAACAT
Statistics
Matches: 38, Mismatches: 4, Indels: 6
0.79 0.08 0.12
Matches are distributed among these distances:
18 11 0.29
19 5 0.13
20 1 0.03
21 19 0.50
22 2 0.05
ACGTcount: A:0.40, C:0.03, G:0.05, T:0.52
Consensus pattern (20 bp):
TATATCTTTATTAATATTAG
Found at i:20780010 original size:24 final size:22
Alignment explanation
Indices: 20779980--20780036 Score: 69
Period size: 24 Copynumber: 2.5 Consensus size: 22
20779970 ACTATATGTG
*
20779980 TATATATTATGTAAATGTTTTAA
1 TATATATTATGTAAACGTTTT-A
* *
20780003 TATTATATTATATATACGTTTTA
1 TA-TATATTATGTAAACGTTTTA
20780026 TATATATTATG
1 TATATATTATG
20780037 AACATGTATT
Statistics
Matches: 29, Mismatches: 4, Indels: 3
0.81 0.11 0.08
Matches are distributed among these distances:
22 8 0.28
23 5 0.17
24 16 0.55
ACGTcount: A:0.37, C:0.02, G:0.07, T:0.54
Consensus pattern (22 bp):
TATATATTATGTAAACGTTTTA
Found at i:20787937 original size:26 final size:26
Alignment explanation
Indices: 20787901--20788010 Score: 175
Period size: 26 Copynumber: 4.2 Consensus size: 26
20787891 TGATACAAAT
*
20787901 TGATAAAAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
20787927 TGATAATAGGTTAGGTAAATGTTCCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
20787953 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
* *
20787979 TGATAATGGGTTAGGTAAATGTTTCA
1 TGATAATAGGTTAGGTAAATGTTCCA
20788005 TGATAA
1 TGATAA
20788011 GAATTTCATG
Statistics
Matches: 81, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
26 81 1.00
ACGTcount: A:0.35, C:0.05, G:0.25, T:0.35
Consensus pattern (26 bp):
TGATAATAGGTTAGGTAAATGTTCCA
Found at i:20791175 original size:10 final size:11
Alignment explanation
Indices: 20791159--20791188 Score: 53
Period size: 10 Copynumber: 2.8 Consensus size: 11
20791149 CAATTTGTGA
20791159 AAAAATAAAAT
1 AAAAATAAAAT
20791170 -AAAATAAAAT
1 AAAAATAAAAT
20791180 AAAAATAAA
1 AAAAATAAA
20791189 GAACACGCAG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.83, C:0.00, G:0.00, T:0.17
Consensus pattern (11 bp):
AAAAATAAAAT
Found at i:20791455 original size:16 final size:17
Alignment explanation
Indices: 20791434--20791471 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 17
20791424 TTCTATATGG
*
20791434 ATTTTACT-TTTATTTT
1 ATTTTACTATGTATTTT
20791450 ATTTTACTACTGTATTTT
1 ATTTTACTA-TGTATTTT
20791468 ATTT
1 ATTT
20791472 AAATAAGGAT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
16 8 0.42
18 11 0.58
ACGTcount: A:0.21, C:0.08, G:0.03, T:0.68
Consensus pattern (17 bp):
ATTTTACTATGTATTTT
Found at i:20799664 original size:30 final size:30
Alignment explanation
Indices: 20799628--20799691 Score: 128
Period size: 30 Copynumber: 2.1 Consensus size: 30
20799618 GGAGAGGTTG
20799628 ACATGCACTACTAACCAAAGAAATTTTCTA
1 ACATGCACTACTAACCAAAGAAATTTTCTA
20799658 ACATGCACTACTAACCAAAGAAATTTTCTA
1 ACATGCACTACTAACCAAAGAAATTTTCTA
20799688 ACAT
1 ACAT
20799692 ATTACGAACC
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:0.44, C:0.23, G:0.06, T:0.27
Consensus pattern (30 bp):
ACATGCACTACTAACCAAAGAAATTTTCTA
Found at i:20802838 original size:21 final size:19
Alignment explanation
Indices: 20802782--20802841 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 19
20802772 AGTTGCCGAA
*
20802782 CTTCTCTTCTTCTTTTTCT
1 CTTCTTTTCTTCTTTTTCT
* *
20802801 CTTCTTCTCTATTTTTTTCT
1 CTTCTTTTCT-TCTTTTTCT
20802821 CCTTCATTTTCTTCTTTTTCT
1 -CTTC-TTTTCTTCTTTTTCT
20802842 ATTAGTTGTG
Statistics
Matches: 33, Mismatches: 5, Indels: 4
0.79 0.12 0.10
Matches are distributed among these distances:
19 8 0.24
20 8 0.24
21 12 0.36
22 5 0.15
ACGTcount: A:0.03, C:0.28, G:0.00, T:0.68
Consensus pattern (19 bp):
CTTCTTTTCTTCTTTTTCT
Found at i:20812675 original size:23 final size:22
Alignment explanation
Indices: 20812617--20812677 Score: 65
Period size: 21 Copynumber: 2.8 Consensus size: 22
20812607 CGACACATAA
20812617 GTGCTTGAAATA-ACACACGAG
1 GTGCTTGAAATAGACACACGAG
* *
20812638 GTACCTG--ATACGACACACGAG
1 GTGCTTGAAATA-GACACACGAG
20812659 GTGCTTGAAATATGACACA
1 GTGCTTGAAATA-GACACA
20812678 TAAAGTGCCT
Statistics
Matches: 31, Mismatches: 5, Indels: 6
0.74 0.12 0.14
Matches are distributed among these distances:
19 3 0.10
21 19 0.61
23 9 0.29
ACGTcount: A:0.36, C:0.21, G:0.23, T:0.20
Consensus pattern (22 bp):
GTGCTTGAAATAGACACACGAG
Found at i:20813175 original size:17 final size:18
Alignment explanation
Indices: 20813147--20813180 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20813137 AATTTCTATT
*
20813147 CAATTTATATCCTAATTC
1 CAATTTATATCCCAATTC
20813165 CAATTTA-ATCCCAATT
1 CAATTTATATCCCAATT
20813181 AACTCATATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.35, C:0.24, G:0.00, T:0.41
Consensus pattern (18 bp):
CAATTTATATCCCAATTC
Found at i:20813693 original size:12 final size:12
Alignment explanation
Indices: 20813672--20813711 Score: 53
Period size: 12 Copynumber: 3.3 Consensus size: 12
20813662 ATATTATTTA
* *
20813672 ATAATGATAATA
1 ATAATAATAATT
*
20813684 ATTATAATAATT
1 ATAATAATAATT
20813696 ATAATAATAATT
1 ATAATAATAATT
20813708 ATAA
1 ATAA
20813712 CAAATATCTT
Statistics
Matches: 24, Mismatches: 4, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.57, C:0.00, G:0.03, T:0.40
Consensus pattern (12 bp):
ATAATAATAATT
Found at i:20813711 original size:9 final size:9
Alignment explanation
Indices: 20813670--20813703 Score: 59
Period size: 9 Copynumber: 3.8 Consensus size: 9
20813660 AAATATTATT
*
20813670 TAATAATGA
1 TAATAATTA
20813679 TAATAATTA
1 TAATAATTA
20813688 TAATAATTA
1 TAATAATTA
20813697 TAATAAT
1 TAATAAT
20813704 AATTATAACA
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
9 24 1.00
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (9 bp):
TAATAATTA
Found at i:20814973 original size:18 final size:18
Alignment explanation
Indices: 20814942--20814981 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
20814932 GCCGTATGGG
*
20814942 CCATACGGGTGTGTGACC
1 CCATACGGGCGTGTGACC
* *
20814960 CCATATGGGCGTGTGAGC
1 CCATACGGGCGTGTGACC
20814978 CCAT
1 CCAT
20814982 TATTTCTGAA
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.17, C:0.28, G:0.33, T:0.23
Consensus pattern (18 bp):
CCATACGGGCGTGTGACC
Found at i:20818542 original size:25 final size:25
Alignment explanation
Indices: 20818486--20818553 Score: 64
Period size: 25 Copynumber: 2.7 Consensus size: 25
20818476 CTCTCGAGCC
* *
20818486 ATATAACGGGAAGCTCATGTGAGCT
1 ATATAACGGGAAGCTCATCTGAGAT
* * *
20818511 ATGTAACGGGAAGCTTATCTGGGAT
1 ATATAACGGGAAGCTCATCTGAGAT
* **
20818536 GTATAACAAGAAGCTCAT
1 ATATAACGGGAAGCTCAT
20818554 AATAGCCATA
Statistics
Matches: 33, Mismatches: 10, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
25 33 1.00
ACGTcount: A:0.34, C:0.15, G:0.26, T:0.25
Consensus pattern (25 bp):
ATATAACGGGAAGCTCATCTGAGAT
Found at i:20821333 original size:19 final size:20
Alignment explanation
Indices: 20821298--20821335 Score: 53
Period size: 19 Copynumber: 1.9 Consensus size: 20
20821288 AAAAATAAAA
20821298 ACAACCTATAACATATATTT
1 ACAACCTATAACATATATTT
20821318 ACAA-CTAT-ACACTATATT
1 ACAACCTATAACA-TATATT
20821336 CTTTAAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
18 3 0.18
19 10 0.59
20 4 0.24
ACGTcount: A:0.45, C:0.21, G:0.00, T:0.34
Consensus pattern (20 bp):
ACAACCTATAACATATATTT
Found at i:20837457 original size:14 final size:15
Alignment explanation
Indices: 20837437--20837475 Score: 55
Period size: 14 Copynumber: 2.7 Consensus size: 15
20837427 TTGTTTCACT
20837437 AAAAATAATTTTCAG
1 AAAAATAATTTTCAG
*
20837452 -AAAATAA-TTTCTG
1 AAAAATAATTTTCAG
20837465 AAAAATAATTT
1 AAAAATAATTT
20837476 ACATTTCTGG
Statistics
Matches: 21, Mismatches: 1, Indels: 4
0.81 0.04 0.15
Matches are distributed among these distances:
13 5 0.24
14 14 0.67
15 2 0.10
ACGTcount: A:0.54, C:0.05, G:0.05, T:0.36
Consensus pattern (15 bp):
AAAAATAATTTTCAG
Found at i:20844659 original size:12 final size:11
Alignment explanation
Indices: 20844630--20844660 Score: 53
Period size: 11 Copynumber: 2.8 Consensus size: 11
20844620 GTGTATGCTT
20844630 AATTTTTTCTA
1 AATTTTTTCTA
20844641 AATTTTTTCTA
1 AATTTTTTCTA
*
20844652 AATGTTTTC
1 AATTTTTTC
20844661 ATGTATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 19 1.00
ACGTcount: A:0.26, C:0.10, G:0.03, T:0.61
Consensus pattern (11 bp):
AATTTTTTCTA
Found at i:20846711 original size:31 final size:31
Alignment explanation
Indices: 20846676--20846736 Score: 104
Period size: 31 Copynumber: 2.0 Consensus size: 31
20846666 AATAGACCAA
*
20846676 TGACTTAAATAAAAACTTTTAAATAGTTCAG
1 TGACTTAAATAAAAACTTTCAAATAGTTCAG
*
20846707 TGACTTAAATGAAAACTTTCAAATAGTTCA
1 TGACTTAAATAAAAACTTTCAAATAGTTCA
20846737 ATAACCAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 28 1.00
ACGTcount: A:0.44, C:0.11, G:0.10, T:0.34
Consensus pattern (31 bp):
TGACTTAAATAAAAACTTTCAAATAGTTCAG
Found at i:20852420 original size:46 final size:46
Alignment explanation
Indices: 20852368--20852773 Score: 589
Period size: 46 Copynumber: 8.8 Consensus size: 46
20852358 AGTGTGCTCT
*
20852368 CTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20852414 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
20852460 GTGATATGGAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
20852506 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
*
20852552 GTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* ** *
20852598 GTGATATGAAATGAATAAGACCATGGCTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *
20852644 CTGACATGAAATGAGTAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* *** **
20852690 ATGACGGGAAAATGAATAAGACCATGGTTGAAAGATACCATGGCAAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
* * * * * *
20852737 ATGACA-GAAAACGAGTAAAACCATAGTTGAAAGATAC
1 CTGATATG-AAATGTGTAAGACCATGGTTGAAAGATAC
20852774 TATGACATCA
Statistics
Matches: 337, Mismatches: 22, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
46 295 0.88
47 42 0.12
ACGTcount: A:0.39, C:0.15, G:0.25, T:0.21
Consensus pattern (46 bp):
CTGATATGAAATGTGTAAGACCATGGTTGAAAGATACCATGGCAAC
Found at i:20855369 original size:11 final size:11
Alignment explanation
Indices: 20855335--20855374 Score: 53
Period size: 11 Copynumber: 3.6 Consensus size: 11
20855325 TAATAACAAC
*
20855335 AAAATAGTAGC
1 AAAATAGTAGT
* *
20855346 AACATACTAGT
1 AAAATAGTAGT
20855357 AAAATAGTAGT
1 AAAATAGTAGT
20855368 AAAATAG
1 AAAATAG
20855375 GGAGAAAATA
Statistics
Matches: 24, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.55, C:0.07, G:0.15, T:0.23
Consensus pattern (11 bp):
AAAATAGTAGT
Found at i:20857065 original size:20 final size:20
Alignment explanation
Indices: 20857040--20857080 Score: 73
Period size: 20 Copynumber: 2.0 Consensus size: 20
20857030 CTCTTCCATG
20857040 ACTGTTTTTCAGCTGAAGAA
1 ACTGTTTTTCAGCTGAAGAA
*
20857060 ACTGTTTTTCAGCTGATGAA
1 ACTGTTTTTCAGCTGAAGAA
20857080 A
1 A
20857081 ATGAAGAGAA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.29, C:0.15, G:0.20, T:0.37
Consensus pattern (20 bp):
ACTGTTTTTCAGCTGAAGAA
Found at i:20860114 original size:14 final size:15
Alignment explanation
Indices: 20860075--20860106 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
20860065 TAAACATCAC
*
20860075 AAACATATTTACCAA
1 AAACATACTTACCAA
20860090 AAACATACTTACCAA
1 AAACATACTTACCAA
20860105 AA
1 AA
20860107 TATGCTTATT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.56, C:0.22, G:0.00, T:0.22
Consensus pattern (15 bp):
AAACATACTTACCAA
Found at i:20861164 original size:56 final size:56
Alignment explanation
Indices: 20861104--20861239 Score: 236
Period size: 56 Copynumber: 2.4 Consensus size: 56
20861094 TCCCAGACAA
* * *
20861104 GGTCTTACTCGCACACATAAATCGGAATCACATATCGATGCCAACGTATTAAACGT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCAATGCCAACGTATTAAACAT
*
20861160 GGTCTTACTCGCAGACATATATCGGAATCACATATCAATGCCAACGTATTAAACAT
1 GGTCTTACTCGCACACATATATCGGAATCACATATCAATGCCAACGTATTAAACAT
20861216 GGTCTTACTCGCACACATATATCG
1 GGTCTTACTCGCACACATATATCG
20861240 ATGCCATGGT
Statistics
Matches: 75, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
56 75 1.00
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.26
Consensus pattern (56 bp):
GGTCTTACTCGCACACATATATCGGAATCACATATCAATGCCAACGTATTAAACAT
Found at i:20867170 original size:92 final size:92
Alignment explanation
Indices: 20866937--20867194 Score: 270
Period size: 91 Copynumber: 2.8 Consensus size: 92
20866927 TTTCGAAGTT
* * * * * *
20866937 TTTGGCAAGTTATCGGAAGAGAATAGTTAGCCTACAGGTTTTGTACTATGTGTATCTAGCATGTT
1 TTTGGCATGTTATCGGAGGAGAATATTTAGCCTACAGGATTTGCACTATGTGCATCTAGCATGTT
* * *
20867002 ATCGGTTGTAATAACATTTATGGGTAA
66 ATCGGTTGAAATAACATTTATGAGCAA
* ** * * * *
20867029 TTTGGCAT-TTATAGGAGGAGAGCATTTAGCTTACGGGCTTTACACTATGTGCATCT-GACATGT
1 TTTGGCATGTTATCGGAGGAGAATATTTAGCCTACAGGATTTGCACTATGTGCATCTAG-CATGT
* * *
20867092 TATTGGTTGAAATAGC-TCTTATTAGCAA
65 TATCGGTTGAAATAACAT-TTATGAGCAA
* * * *
20867120 TTTGGCGTGTTATCGGAGGAGAATATTTAACCTACATGATTTGCACTATGTGCATCTAGCGTGTT
1 TTTGGCATGTTATCGGAGGAGAATATTTAGCCTACAGGATTTGCACTATGTGCATCTAGCATGTT
20867185 ATCGGTTGAA
66 ATCGGTTGAA
20867195 TTGATATGAT
Statistics
Matches: 132, Mismatches: 30, Indels: 8
0.78 0.18 0.05
Matches are distributed among these distances:
90 2 0.02
91 69 0.52
92 60 0.45
93 1 0.01
ACGTcount: A:0.26, C:0.13, G:0.24, T:0.36
Consensus pattern (92 bp):
TTTGGCATGTTATCGGAGGAGAATATTTAGCCTACAGGATTTGCACTATGTGCATCTAGCATGTT
ATCGGTTGAAATAACATTTATGAGCAA
Found at i:20871431 original size:42 final size:42
Alignment explanation
Indices: 20871371--20871469 Score: 162
Period size: 42 Copynumber: 2.4 Consensus size: 42
20871361 TAGCTCTCAC
* *
20871371 GAGCTTCTATTTAACTCATATGAGTTTTCGTTCAGCTCTATT
1 GAGCTTCTGTTTAACTCATATGAGTTTTCCTTCAGCTCTATT
* *
20871413 GAGCTTCTGTTTATCTCATATGAGTTTTCCTTCAGCTCTTTT
1 GAGCTTCTGTTTAACTCATATGAGTTTTCCTTCAGCTCTATT
20871455 GAGCTTCTGTTTAAC
1 GAGCTTCTGTTTAAC
20871470 CCTTATGGGT
Statistics
Matches: 52, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.18, C:0.20, G:0.15, T:0.46
Consensus pattern (42 bp):
GAGCTTCTGTTTAACTCATATGAGTTTTCCTTCAGCTCTATT
Found at i:20871485 original size:21 final size:21
Alignment explanation
Indices: 20871459--20871528 Score: 86
Period size: 21 Copynumber: 3.3 Consensus size: 21
20871449 TCTTTTGAGC
*
20871459 TTCTGTTTAACCCTTATGGGT
1 TTCTGTTCAACCCTTATGGGT
* * * *
20871480 TTCTGTTCAACTCTTACGAGC
1 TTCTGTTCAACCCTTATGGGT
*
20871501 TTCTGTTCAACCTTTATGGGT
1 TTCTGTTCAACCCTTATGGGT
20871522 TTCTGTT
1 TTCTGTT
20871529 TAGCTCTCAT
Statistics
Matches: 39, Mismatches: 10, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
21 39 1.00
ACGTcount: A:0.14, C:0.21, G:0.17, T:0.47
Consensus pattern (21 bp):
TTCTGTTCAACCCTTATGGGT
Found at i:20871494 original size:42 final size:42
Alignment explanation
Indices: 20871371--20871512 Score: 160
Period size: 42 Copynumber: 3.4 Consensus size: 42
20871361 TAGCTCTCAC
* * *
20871371 GAGCTTCTATTTAACTCATATGAGTTTTCGTTCAGCTCTATT
1 GAGCTTCTGTTTAACCCATATGAGTTTTCGTTCAGCTCTTTT
* * *
20871413 GAGCTTCTGTTTATCTCATATGAGTTTTCCTTCAGCTCTTTT
1 GAGCTTCTGTTTAACCCATATGAGTTTTCGTTCAGCTCTTTT
* * * **
20871455 GAGCTTCTGTTTAACCCTTATG-GGTTTCTGTTCAACTCTTAC
1 GAGCTTCTGTTTAACCCATATGAGTTTTC-GTTCAGCTCTTTT
*
20871497 GAGCTTCTGTTCAACC
1 GAGCTTCTGTTTAACC
20871513 TTTATGGGTT
Statistics
Matches: 86, Mismatches: 13, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
41 5 0.06
42 81 0.94
ACGTcount: A:0.18, C:0.23, G:0.15, T:0.44
Consensus pattern (42 bp):
GAGCTTCTGTTTAACCCATATGAGTTTTCGTTCAGCTCTTTT
Found at i:20871518 original size:42 final size:42
Alignment explanation
Indices: 20871455--20871556 Score: 132
Period size: 42 Copynumber: 2.4 Consensus size: 42
20871445 CAGCTCTTTT
* * *
20871455 GAGCTTCTGTTTAACCCTTATGGGTTTCTGTTCAACTCTTAC
1 GAGCTTCTGTTCAACCTTTATGGGTTTCTGTTCAACTCTCAC
* * *
20871497 GAGCTTCTGTTCAACCTTTATGGGTTTCTGTTTAGCTCTCAT
1 GAGCTTCTGTTCAACCTTTATGGGTTTCTGTTCAACTCTCAC
* *
20871539 GAGCTTTTGTTCAGCCTT
1 GAGCTTCTGTTCAACCTT
20871557 CGGGCTTCCG
Statistics
Matches: 52, Mismatches: 8, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
42 52 1.00
ACGTcount: A:0.15, C:0.23, G:0.19, T:0.44
Consensus pattern (42 bp):
GAGCTTCTGTTCAACCTTTATGGGTTTCTGTTCAACTCTCAC
Found at i:20873441 original size:20 final size:20
Alignment explanation
Indices: 20873416--20873484 Score: 79
Period size: 20 Copynumber: 3.4 Consensus size: 20
20873406 CAAGGTTAAC
20873416 CAAACTAATTTGCATTATTT
1 CAAACTAATTTGCATTATTT
* *
20873436 CAAACTAA-GT-CACTTATTAAC
1 CAAACTAATTTGCA-TTATT--T
20873457 CAAACTAATTTGCATTATTT
1 CAAACTAATTTGCATTATTT
20873477 CAAACTAA
1 CAAACTAA
20873485 GTTACTTACC
Statistics
Matches: 40, Mismatches: 4, Indels: 10
0.74 0.07 0.19
Matches are distributed among these distances:
18 2 0.05
19 6 0.15
20 16 0.40
21 8 0.20
22 6 0.15
23 2 0.05
ACGTcount: A:0.41, C:0.19, G:0.04, T:0.36
Consensus pattern (20 bp):
CAAACTAATTTGCATTATTT
Found at i:20873468 original size:41 final size:41
Alignment explanation
Indices: 20873411--20873492 Score: 155
Period size: 41 Copynumber: 2.0 Consensus size: 41
20873401 GTACCCAAGG
20873411 TTAACCAAACTAATTTGCATTATTTCAAACTAAGTCACTTA
1 TTAACCAAACTAATTTGCATTATTTCAAACTAAGTCACTTA
*
20873452 TTAACCAAACTAATTTGCATTATTTCAAACTAAGTTACTTA
1 TTAACCAAACTAATTTGCATTATTTCAAACTAAGTCACTTA
20873493 CCTATCAAAA
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
41 40 1.00
ACGTcount: A:0.39, C:0.18, G:0.05, T:0.38
Consensus pattern (41 bp):
TTAACCAAACTAATTTGCATTATTTCAAACTAAGTCACTTA
Found at i:20874746 original size:21 final size:22
Alignment explanation
Indices: 20874716--20874788 Score: 125
Period size: 21 Copynumber: 3.5 Consensus size: 22
20874706 AGCTTGAAAG
20874716 TTGAACAGAAGCTCGTAAGAGC
1 TTGAACAGAAGCTCGTAAGAGC
20874738 TTG-ACAGAAGCTCGTAAGAGC
1 TTGAACAGAAGCTCGTAAGAGC
20874759 -TGAACAGAAGCTCGTAAGAG-
1 TTGAACAGAAGCTCGTAAGAGC
20874779 TTGAACAGAA
1 TTGAACAGAA
20874789 AATAAAACAC
Statistics
Matches: 49, Mismatches: 0, Indels: 5
0.91 0.00 0.09
Matches are distributed among these distances:
20 2 0.04
21 44 0.90
22 3 0.06
ACGTcount: A:0.38, C:0.16, G:0.27, T:0.18
Consensus pattern (22 bp):
TTGAACAGAAGCTCGTAAGAGC
Found at i:20876368 original size:18 final size:18
Alignment explanation
Indices: 20876345--20876382 Score: 58
Period size: 18 Copynumber: 2.1 Consensus size: 18
20876335 AATATATATT
20876345 AACCCAAGTACCCAAACC
1 AACCCAAGTACCCAAACC
* *
20876363 AACCCAATTACCCAACCC
1 AACCCAAGTACCCAAACC
20876381 AA
1 AA
20876383 TCATAAAAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.45, C:0.45, G:0.03, T:0.08
Consensus pattern (18 bp):
AACCCAAGTACCCAAACC
Found at i:20876449 original size:7 final size:6
Alignment explanation
Indices: 20876408--20876448 Score: 55
Period size: 6 Copynumber: 6.5 Consensus size: 6
20876398 ATAATTTAAT
*
20876408 AAATAA AAATAA AAATCTAA AACTAA AAATAA AAATAA AAA
1 AAATAA AAATAA AAA--TAA AAATAA AAATAA AAATAA AAA
20876449 AATATAATTT
Statistics
Matches: 31, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
6 26 0.84
8 5 0.16
ACGTcount: A:0.78, C:0.05, G:0.00, T:0.17
Consensus pattern (6 bp):
AAATAA
Found at i:20876449 original size:20 final size:20
Alignment explanation
Indices: 20876411--20876449 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20876401 ATTTAATAAA
**
20876411 TAAAAATAAAAATCTAAAAC
1 TAAAAATAAAAATAAAAAAC
20876431 TAAAAATAAAAATAAAAAA
1 TAAAAATAAAAATAAAAAA
20876450 ATATAATTTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.77, C:0.05, G:0.00, T:0.18
Consensus pattern (20 bp):
TAAAAATAAAAATAAAAAAC
Found at i:20876480 original size:9 final size:9
Alignment explanation
Indices: 20876466--20876515 Score: 66
Period size: 9 Copynumber: 5.6 Consensus size: 9
20876456 TTTTATCAAA
20876466 TAATTCGGT
1 TAATTCGGT
*
20876475 TAATTC-TT
1 TAATTCGGT
*
20876483 GTAATTCGGG
1 -TAATTCGGT
20876493 TAATTCGGT
1 TAATTCGGT
20876502 TAATTCGGT
1 TAATTCGGT
20876511 TAATT
1 TAATT
20876516 TTATACTTAT
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
8 1 0.03
9 34 0.97
ACGTcount: A:0.24, C:0.10, G:0.20, T:0.46
Consensus pattern (9 bp):
TAATTCGGT
Found at i:20877466 original size:39 final size:41
Alignment explanation
Indices: 20877387--20877476 Score: 130
Period size: 39 Copynumber: 2.2 Consensus size: 41
20877377 TTAAAAATAT
* * *
20877387 TTATATTAAAAAACACTATTATGAATATAATAAATATTTTA
1 TTATATTAAAAAACACTATAATAAACATAATAAATATTTTA
20877428 TTATATTAAAAAACA-TA-AATAAACATAATAAATATTTTA
1 TTATATTAAAAAACACTATAATAAACATAATAAATATTTTA
*
20877467 TTGTATTAAA
1 TTATATTAAA
20877477 TATAATTTTT
Statistics
Matches: 45, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
39 28 0.62
40 2 0.04
41 15 0.33
ACGTcount: A:0.53, C:0.04, G:0.02, T:0.40
Consensus pattern (41 bp):
TTATATTAAAAAACACTATAATAAACATAATAAATATTTTA
Found at i:20877642 original size:31 final size:29
Alignment explanation
Indices: 20877577--20877642 Score: 73
Period size: 29 Copynumber: 2.2 Consensus size: 29
20877567 GTTATTAATT
20877577 TAATATAAATATATAATTATTATTTAACA
1 TAATATAAATATATAATTATTATTTAACA
* *
20877606 T-ATATAATTAATATAA-TATTTTTTATAACA
1 TAATATAAAT-ATATAATTA-TTATT-TAACA
20877636 TAATATA
1 TAATATA
20877643 TATTCGAGCT
Statistics
Matches: 31, Mismatches: 2, Indels: 6
0.79 0.05 0.15
Matches are distributed among these distances:
28 9 0.29
29 11 0.35
30 6 0.19
31 5 0.16
ACGTcount: A:0.50, C:0.03, G:0.00, T:0.47
Consensus pattern (29 bp):
TAATATAAATATATAATTATTATTTAACA
Found at i:20893201 original size:23 final size:23
Alignment explanation
Indices: 20893174--20893225 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 23
20893164 AGTAATATAC
*
20893174 AAAATAATATACATTAA-TTTAA
1 AAAATAATATACATAAATTTTAA
20893196 ATAAATAATATACATAAATTTTAA
1 A-AAATAATATACATAAATTTTAA
20893220 AAAATA
1 AAAATA
20893226 GTGTAATGTA
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
22 1 0.04
23 20 0.74
24 6 0.22
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.35
Consensus pattern (23 bp):
AAAATAATATACATAAATTTTAA
Found at i:20894133 original size:38 final size:38
Alignment explanation
Indices: 20894082--20894156 Score: 150
Period size: 38 Copynumber: 2.0 Consensus size: 38
20894072 AGGGAAAGCG
20894082 TTCTCTGGCCTGAGCAGTATCCGGTGATCGGACCACCA
1 TTCTCTGGCCTGAGCAGTATCCGGTGATCGGACCACCA
20894120 TTCTCTGGCCTGAGCAGTATCCGGTGATCGGACCACC
1 TTCTCTGGCCTGAGCAGTATCCGGTGATCGGACCACC
20894157 GCCGGTCCCT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 37 1.00
ACGTcount: A:0.17, C:0.32, G:0.27, T:0.24
Consensus pattern (38 bp):
TTCTCTGGCCTGAGCAGTATCCGGTGATCGGACCACCA
Found at i:20899891 original size:28 final size:28
Alignment explanation
Indices: 20899852--20899959 Score: 107
Period size: 28 Copynumber: 3.8 Consensus size: 28
20899842 AAAAATTTAT
20899852 AAAAATTATTAAATTATAATAAAAATAG
1 AAAAATTATTAAATTATAATAAAAATAG
*
20899880 AAAAA-TACTTAAATT-TATTAAAAATTAG
1 AAAAATTA-TTAAATTATAATAAAAA-TAG
*
20899908 AAAAAATTA-TAAAATAT-ATAGAAATATAG
1 -AAAAATTATTAAATTATAATA-AAA-ATAG
* *
20899937 AAAAATTATAAAATTTTAATAAA
1 AAAAATTATTAAATTATAATAAA
20899960 CCTAAATATA
Statistics
Matches: 65, Mismatches: 6, Indels: 17
0.74 0.07 0.19
Matches are distributed among these distances:
27 10 0.15
28 30 0.46
29 19 0.29
30 6 0.09
ACGTcount: A:0.63, C:0.01, G:0.04, T:0.32
Consensus pattern (28 bp):
AAAAATTATTAAATTATAATAAAAATAG
Found at i:20900063 original size:2 final size:2
Alignment explanation
Indices: 20900056--20900086 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
20900046 CCATTTGATT
20900056 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
20900087 TATGAATTTG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:20901893 original size:5 final size:5
Alignment explanation
Indices: 20901883--20901910 Score: 56
Period size: 5 Copynumber: 5.6 Consensus size: 5
20901873 ATGTAAACTC
20901883 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT
20901911 GGTGAAAAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 23 1.00
ACGTcount: A:0.18, C:0.00, G:0.00, T:0.82
Consensus pattern (5 bp):
TTTTA
Found at i:20902612 original size:51 final size:51
Alignment explanation
Indices: 20902549--20902651 Score: 206
Period size: 51 Copynumber: 2.0 Consensus size: 51
20902539 AATAGAATCA
20902549 TTTCGACTCTTCTATAGAAACCAAGTCATGATAAAGAAGAAAATGGGACAT
1 TTTCGACTCTTCTATAGAAACCAAGTCATGATAAAGAAGAAAATGGGACAT
20902600 TTTCGACTCTTCTATAGAAACCAAGTCATGATAAAGAAGAAAATGGGACAT
1 TTTCGACTCTTCTATAGAAACCAAGTCATGATAAAGAAGAAAATGGGACAT
20902651 T
1 T
20902652 CACCATATTA
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
51 52 1.00
ACGTcount: A:0.41, C:0.16, G:0.17, T:0.26
Consensus pattern (51 bp):
TTTCGACTCTTCTATAGAAACCAAGTCATGATAAAGAAGAAAATGGGACAT
Found at i:20903940 original size:12 final size:12
Alignment explanation
Indices: 20903923--20903947 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
20903913 TGAAAAAAGG
20903923 AATAAATTGTAA
1 AATAAATTGTAA
20903935 AATAAATTGTAA
1 AATAAATTGTAA
20903947 A
1 A
20903948 TTTTGAGTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.60, C:0.00, G:0.08, T:0.32
Consensus pattern (12 bp):
AATAAATTGTAA
Found at i:20904479 original size:16 final size:16
Alignment explanation
Indices: 20904454--20904487 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
20904444 ATGAATATAT
* *
20904454 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
20904470 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
20904486 AT
1 AT
20904488 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:20920544 original size:20 final size:19
Alignment explanation
Indices: 20920499--20920549 Score: 59
Period size: 20 Copynumber: 2.7 Consensus size: 19
20920489 GACATTTTTC
20920499 TGTTAGAAAAA-AAAATAA
1 TGTTAGAAAAATAAAATAA
** *
20920517 AATAAGAAAAATGAAAATAA
1 TGTTAGAAAAAT-AAAATAA
20920537 TGTTAGAAAAATA
1 TGTTAGAAAAATA
20920550 TGAATGCCTT
Statistics
Matches: 25, Mismatches: 6, Indels: 3
0.74 0.18 0.09
Matches are distributed among these distances:
18 8 0.32
19 1 0.04
20 16 0.64
ACGTcount: A:0.67, C:0.00, G:0.12, T:0.22
Consensus pattern (19 bp):
TGTTAGAAAAATAAAATAA
Found at i:20934415 original size:14 final size:14
Alignment explanation
Indices: 20934396--20934434 Score: 53
Period size: 14 Copynumber: 2.8 Consensus size: 14
20934386 TTGTTTTATT
20934396 GAAAATGACTTTC-G
1 GAAAATGA-TTTCTG
20934410 GAAAATGATTTCTG
1 GAAAATGATTTCTG
*
20934424 CAAAATGATTT
1 GAAAATGATTT
20934435 ACTTTTTTCT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
13 4 0.17
14 19 0.83
ACGTcount: A:0.38, C:0.10, G:0.18, T:0.33
Consensus pattern (14 bp):
GAAAATGATTTCTG
Found at i:20934572 original size:15 final size:15
Alignment explanation
Indices: 20934552--20934581 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
20934542 AATTAAACAA
20934552 ACATGTAAAAGGTTT
1 ACATGTAAAAGGTTT
20934567 ACATGTAAAAGGTTT
1 ACATGTAAAAGGTTT
20934582 TACGGAAAAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.40, C:0.07, G:0.20, T:0.33
Consensus pattern (15 bp):
ACATGTAAAAGGTTT
Found at i:20934968 original size:15 final size:15
Alignment explanation
Indices: 20934948--20935004 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
20934938 ATTCAATATT
20934948 AATATTTTAATAATA
1 AATATTTTAATAATA
*
20934963 AATATTTATTACAATTATA
1 AATA-TT-TT--AATAATA
*
20934982 AATATATTAATAATA
1 AATATTTTAATAATA
*
20934997 AATGTTTT
1 AATATTTT
20935005 GTAGTATAAA
Statistics
Matches: 33, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
15 16 0.48
16 2 0.06
17 4 0.12
18 1 0.03
19 10 0.30
ACGTcount: A:0.49, C:0.02, G:0.02, T:0.47
Consensus pattern (15 bp):
AATATTTTAATAATA
Found at i:20935484 original size:19 final size:19
Alignment explanation
Indices: 20935460--20935499 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
20935450 TCACTCAAAT
20935460 CTCTCTCCTTCTAAAAAAA
1 CTCTCTCCTTCTAAAAAAA
20935479 CTCTCTCCTTCTAAAAAAA
1 CTCTCTCCTTCTAAAAAAA
20935498 CT
1 CT
20935500 TTCTAAGGTA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.35, C:0.33, G:0.00, T:0.33
Consensus pattern (19 bp):
CTCTCTCCTTCTAAAAAAA
Found at i:20946302 original size:129 final size:132
Alignment explanation
Indices: 20946060--20946341 Score: 299
Period size: 129 Copynumber: 2.2 Consensus size: 132
20946050 ACGGGAGATT
* * * *
20946060 GCAACCCAGCACGATAGGGCACTATTCCCCGAACTGCCAAACATCGAACACTTCTTTCGTTTTAA
1 GCAACCCAGCACGATATGGCACAATTCCCCAAACTGCCAAACATCGAACACTCCTTTCGTTTTAA
** * * * * * * *
20946125 AGGGTTTTTAGAAAATGTGAATGAAACTTCGAAGGGATCTTCGATTGTTTAGGGCGAATGAAAAA
66 AGGGTTTTTAGAAAACATGAATGAAACCTCAAAGGAATATTCGATTGTTTAGAGCAAACGAAAAA
20946190 AC
131 AC
*
20946192 GCAACCCAGCACGATATGGCACAATT-CTCAAA-TCGCCAAACATCGAACA-TCCTTT-GTTTTG
1 GCAACCCAGCACGATATGGCACAATTCCCCAAACT-GCCAAACATCGAACACTCCTTTCGTTTT-
* * *
20946253 AAA-GGTTTTTA-ATAAACATGAGTGAAAACCT-AAAGGAATATTCGATTGTTTTGAGTAAACGA
64 AAAGGGTTTTTAGA-AAACATGAATG-AAACCTCAAAGGAATATTCGATTGTTTAGAGCAAACGA
* *
20946315 GAAATC
127 AAAAAC
*
20946321 ACAACCCAGCACGATATGGCA
1 GCAACCCAGCACGATATGGCA
20946342 TGATTCCCGA
Statistics
Matches: 126, Mismatches: 20, Indels: 11
0.80 0.13 0.07
Matches are distributed among these distances:
128 1 0.01
129 68 0.54
130 14 0.11
131 19 0.15
132 24 0.19
ACGTcount: A:0.35, C:0.21, G:0.19, T:0.25
Consensus pattern (132 bp):
GCAACCCAGCACGATATGGCACAATTCCCCAAACTGCCAAACATCGAACACTCCTTTCGTTTTAA
AGGGTTTTTAGAAAACATGAATGAAACCTCAAAGGAATATTCGATTGTTTAGAGCAAACGAAAAA
AC
Found at i:20946544 original size:132 final size:131
Alignment explanation
Indices: 20946028--20946659 Score: 483
Period size: 132 Copynumber: 4.8 Consensus size: 131
20946018 ATTCCAGAGA
* * * * * * *
20946028 GATATTCGATTATTTTG-GACAGACGGGAGATTGCAACCCAGCACGATAGGGCACTATTCCCCGA
1 GATATTCGATTATTTTGAG-CAAACGAGAAATTGCAACCCAACACGTTAAGGCACGATT-CCCGA
* * * * ** ** * * *
20946092 ACTGCCAAACATCGAACA-CTTCTTTCGTTTTAAAGGGTTTTTAGAAA-ATGTGAATGAAACTTC
64 ATTGCCAAATATCGAACATC-GCCTTCGTTTTAAAGAATTTTTA-AAAGACATGAGTGAAATTTT
20946155 GAAGG
127 GAAGG
* * * * * * * ** * * * * * *
20946160 GATCTTCGATTGTTTAGGGCGAATGAAAAAACGCAACCCAGCACGATATGGCACAATTCTCAAAT
1 GATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAAGGCACGATTCCCGAAT
* * * * *** *
20946225 CGCCAAACATCGAACAT--CCTTTGTTTTGAAAG-GTTTTTAATAA-ACATGAGTGAAAACCTAA
66 TGCCAAATATCGAACATCGCCTTCGTTTT-AAAGAATTTTTAA-AAGACATGAGTGAAATTTTGA
20946286 AGG
129 AGG
* * * ** * * * *
20946289 AATATTCGATTGTTTTGAGTAAACGAGAAATCACAACCCAGCACGATATGGCATGATTCCCGAAT
1 GATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAAGGCACGATTCCCGAAT
* * * * * * *
20946354 TGTC-AATCACCGAATATTGCCTTCGTTTTAAATG-ATTTTTAGAAGACATGCGTGAAATTTTGG
66 TGCCAAAT-ATCGAACATCGCCTTCGTTTTAAA-GAATTTTTAAAAGACATGAGTGAAATTTTGA
20946417 AGG
129 AGG
* * *
20946420 GATATTTGATTATTTTAAGCAAACGAGAAATTGCAACCCAACACGTTAGGGCACGATTCCACGAA
1 GATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAAGGCACGATTCC-CGAA
* * * *
20946485 TTGCCAAATATCGCACATCGCCTCCATTTTAAAGAATTTTTAAAAGGCATGAGTGAAATTTTGAA
65 TTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAATTTTGAA
20946550 GG
130 GG
* * *
20946552 GATATTCGATTATTTTGAGCAAACGCGAAATTGTAACCCAACACGTTAAGGCACTATTCCGCGAA
1 GATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAAGGCACGATTCC-CGAA
*
20946617 TTGCCAAATATCGAATC-TCGTCTTCGTTTTAAAGAATTTTTAA
65 TTGCCAAATATCGAA-CATCGCCTTCGTTTTAAAGAATTTTTAA
20946660 GTGAATACTT
Statistics
Matches: 399, Mismatches: 88, Indels: 26
0.78 0.17 0.05
Matches are distributed among these distances:
128 3 0.01
129 90 0.23
130 9 0.02
131 100 0.25
132 192 0.48
133 5 0.01
ACGTcount: A:0.34, C:0.19, G:0.19, T:0.29
Consensus pattern (131 bp):
GATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAACACGTTAAGGCACGATTCCCGAAT
TGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAATTTTGAAG
G
Found at i:20950452 original size:132 final size:132
Alignment explanation
Indices: 20950103--20950906 Score: 1089
Period size: 132 Copynumber: 6.1 Consensus size: 132
20950093 TCTACTGGAG
** * * *
20950103 ACGAGATCTGCAATCTTCAGCCTACTCCACTACAATTTTTAGGGAGCCA-GGTCGGTGGCGT-AA
1 ACGAGATCTAAAAT-TTCAACCTACTCCACTACAA-CTTTAGGGAGCTAGGGT-GGTGGC-TCAA
* * * *
20950166 ACCTGCTTCACTGC-AACATCAGGAAGCCTAGATTTACCGTCTTTGATCTGTTCCACTGCAA-TC
62 ATCTGCTTCACTGCAAAC-TCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACT-
20950229 TCAGGGAA
125 TCAGGGAA
* * * * * *
20950237 ACAAGATCTACAATCTTCAGCCTACTCCACTACAACTTTAGGGAGTTAGGTTGGTGGCTTAAATC
1 ACGAGATCTAAAAT-TTCAACCTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGGCTCAAATC
* * * *
20950302 TGCCTCACTGCAATCTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGTAACTTTAGG
65 TGCTTCACTGCAAACTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGG
20950367 GAA
130 GAA
* * *
20950370 ATGAGATCTAAAATTTCAACCTACTCCACTACCACTTTAGGGAGCTAGGGTGATGGCTCAAATCT
1 ACGAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGGCTCAAATCT
* * *
20950435 GCTTCACTGCAAACTCAGGAAGCTTAGATTCACCGTCTCCGATCTGCTCCACTGCAACTTTAGGG
66 GCTTCACTGCAAACTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
20950500 AA
131 AA
* * *
20950502 TCAAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTCAAATCT
1 ACGAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGGCTCAAATCT
* *
20950567 GCTTCACTGCAATCTCAGAAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
66 GCTTCACTGCAAACTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
20950632 AA
131 AA
* *
20950634 ACGAGATCTAAAATTTCAACCTACTCCACTACAATTTTAGGGAGCTAGGGTGATGGCTCAAATCT
1 ACGAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGGCTCAAATCT
*
20950699 GCTTCACTGCAAACTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGTAACTTCAGGG
66 GCTTCACTGCAAACTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
20950764 AA
131 AA
* **
20950766 ACGAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGTTGGTGGCTCCCATCT
1 ACGAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGGCTCAAATCT
* * * * * * *
20950831 GCTTTACTAC-AACTTCAGGAAG-TTAAGATTTACCGTCTTCGATTTGCTTCACTGTAACTTCAG
66 GCTTCACTGCAAAC-TCAGGAAGCCT-AGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAG
20950894 GGAA
129 GGAA
*
20950898 ACAAGATCT
1 ACGAGATCT
20950907 GTAGAATTTA
Statistics
Matches: 605, Mismatches: 59, Indels: 14
0.89 0.09 0.02
Matches are distributed among these distances:
131 4 0.01
132 476 0.79
133 87 0.14
134 38 0.06
ACGTcount: A:0.27, C:0.26, G:0.19, T:0.28
Consensus pattern (132 bp):
ACGAGATCTAAAATTTCAACCTACTCCACTACAACTTTAGGGAGCTAGGGTGGTGGCTCAAATCT
GCTTCACTGCAAACTCAGGAAGCCTAGATTCACCGTCTTCGATCTGCTCCACTGCAACTTCAGGG
AA
Found at i:20963965 original size:52 final size:49
Alignment explanation
Indices: 20963880--20964246 Score: 440
Period size: 46 Copynumber: 7.6 Consensus size: 49
20963870 TTTGAGTACT
* **
20963880 TCTGATCAAGTG---ATAAAGTGATAAGTGGTAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
* *
20963926 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTAATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
20963978 TCTGATCAAGTG---ATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
20964024 TCTGATCAAGTGAC-A-AAA-TGATAAGTGATAGCTTCAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
20964070 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
20964122 TCTGATCAAGTGACAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
1 TCTGATCAAGTGACAA-T--AAAGTGATAAGTGATAGCTTCGGCTACACTTA
* **
20964174 TCTGATCAAGAGAC---AAAGTGATAAGTGATAGCTTTAGCTACACTTA
1 TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
*
20964220 TCTGATCAAGAGAC---AAAGTGATAAGTG
1 TCTGATCAAGTGACAATAAAGTGATAAGTG
20964247 GCTACACTTA
Statistics
Matches: 292, Mismatches: 15, Indels: 28
0.87 0.04 0.08
Matches are distributed among these distances:
46 151 0.52
47 4 0.01
48 2 0.01
49 2 0.01
50 1 0.00
51 3 0.01
52 129 0.44
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (49 bp):
TCTGATCAAGTGACAATAAAGTGATAAGTGATAGCTTCGGCTACACTTA
Found at i:20964000 original size:98 final size:97
Alignment explanation
Indices: 20963880--20964246 Score: 501
Period size: 98 Copynumber: 3.7 Consensus size: 97
20963870 TTTGAGTACT
* *
20963880 TCTGATCAAGTGATAAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTG
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGT-
*
20963945 GAAAGTGATAAGTAATAGCTTCGGCTATACTTA
65 GAAAGTGATAAGTGATAGCTTCGGCTATACTTA
* *
20963978 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTATCTGATCAAGTGAC-A---
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
* *
20964039 AAA-TGATAAGTGATAGCTTCAGCTACACTTA
66 AAAGTGATAAGTGATAGCTTCGGCTATACTTA
*
20964070 TCTGATCAAGTGACAAGTGGAAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGA
1 TCTGATCAAGTG---A-T--AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGA
20964135 CAAGTGAAAAGTGATAAGTGATAGCTTCGGCTATACTTA
60 CAAGTG-AAAGTGATAAGTGATAGCTTCGGCTATACTTA
* * * *
20964174 TCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTATCTGATCAAGAGACAAAGT
1 TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGAC-AAGT
20964239 GATAAGTG
65 GA-AAGTG
20964247 GCTACACTTA
Statistics
Matches: 240, Mismatches: 15, Indels: 27
0.85 0.05 0.10
Matches are distributed among these distances:
92 37 0.15
93 3 0.01
95 1 0.00
96 1 0.00
97 1 0.00
98 145 0.60
99 11 0.05
101 1 0.00
103 3 0.01
104 37 0.15
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (97 bp):
TCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
AAAGTGATAAGTGATAGCTTCGGCTATACTTA
Found at i:20964228 original size:196 final size:196
Alignment explanation
Indices: 20963894--20964246 Score: 598
Period size: 196 Copynumber: 1.8 Consensus size: 196
20963884 ATCAAGTGAT
* * *
20963894 AAAGTGATAAGTGGTAGCTTTAGCTACACTTATCTGATCAAGTGACAAGTGGAAAGTGATAAGTA
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
* * * *
20963959 ATAGCTTCGGCTATACTTATCTGATCAAGTGATAAAGTGATAAGTGATAGCTTCGGCTATACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
20964024 TCTGATCAAGTGACAAAATGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
131 TCTGATCAAGAGACAAAATGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
20964089 G
196 G
* *
20964090 AAAGTGATAAGTGATAGCTTCGGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTG
1 AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
*
20964155 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTTAGCTACACTTA
66 ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
*
20964220 TCTGATCAAGAGACAAAGTGATAAGTG
131 TCTGATCAAGAGACAAAATGATAAGTG
20964247 GCTACACTTA
Statistics
Matches: 145, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
196 145 1.00
ACGTcount: A:0.35, C:0.14, G:0.22, T:0.29
Consensus pattern (196 bp):
AAAGTGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTGAAAAGTGATAAGTA
ATAGCTTCGGCTATACTTATCTGATCAAGAGACAAAGTGATAAGTGATAGCTTCAGCTACACTTA
TCTGATCAAGAGACAAAATGATAAGTGATAGCTTCAGCTACACTTATCTGATCAAGTGACAAGTG
G
Found at i:20964254 original size:37 final size:37
Alignment explanation
Indices: 20964210--20964318 Score: 186
Period size: 37 Copynumber: 3.0 Consensus size: 37
20964200 GATAGCTTTA
20964210 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
20964247 GCTACACTTATCTGATCAAGAAACAAAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
*
20964284 GCTACACTTATCTGATC-AGGGAC-AAGTGATAAGTG
1 GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
20964319 ATCATACGTA
Statistics
Matches: 69, Mismatches: 3, Indels: 2
0.93 0.04 0.03
Matches are distributed among these distances:
35 12 0.17
36 4 0.06
37 53 0.77
ACGTcount: A:0.37, C:0.17, G:0.22, T:0.25
Consensus pattern (37 bp):
GCTACACTTATCTGATCAAGAGACAAAGTGATAAGTG
Found at i:20965893 original size:132 final size:131
Alignment explanation
Indices: 20965365--20965996 Score: 458
Period size: 132 Copynumber: 4.8 Consensus size: 131
20965355 ATTCCGGAGA
* * * * * * *
20965365 GATATTCGGTTATTTTG-GACAGACGGGAGATTGCAACCCCGCACGATAGGGCACTATTCCCCGA
1 GATATTCGATTATTTTGAG-CAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATT-CCCGA
* * * * * ** * * * *
20965429 ACTGCCAAACATCGAACA-CTTCTTTCGTTTAAAAGGGTTTTTAGAAA-ACGTGAATGAAACTTC
64 ATTGCCAAATATCGAACATC-GCCTTCGTTTTAAAGAATTTTTA-AAAGACATGAGTGAAATTTT
20965492 GAAGG
127 GAAGG
* * * * * * * * ** * * * * *
20965497 GATCTTCGATTGTATAGGGCGAATGAAAAAGCGCAACCCAGCACGATATGGCACAATTCTCAAAT
1 GATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCCGAAT
* * * * * *** *
20965562 CGCCAAACATCGAACAT--CATTTGTTTTGAAAG-GTTTTTAATAA-ACATGAGTGAAAACCTAA
66 TGCCAAATATCGAACATCGCCTTCGTTTT-AAAGAATTTTTAA-AAGACATGAGTGAAATTTTGA
20965623 AGG
129 AGG
* * ** *
20965626 AATATTCGATTGTTTTGAGCAAACGAGAAATCACAACCCAGCAC-TATAGGGCATGATTCCCGAA
1 GATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGT-TAGGGCACGATTCCCGAA
* * * * * *
20965690 TTGTC-AATCACCGAATATTGCCTTCGTTTTAAATG-ATTTTTAGAAGACATGCGTGAAATTTTG
65 TTGCCAAAT-ATCGAACATCGCCTTCGTTTTAAA-GAATTTTTAAAAGACATGAGTGAAATTTTG
*
20965753 GAGG
128 AAGG
* * * *
20965757 GATATTTGATTATTTTAAGCAAACGAGAAATTGCAACCCAGCCCGTTAGGGCACGATTCCATGAA
1 GATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCC-CGAA
* * * *
20965822 TTGCCAAATATCGCACATCGCCTCCATTTTAAAGAATTTTTAAAAGGCATGAGTGAAATTTTGAA
65 TTGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAATTTTGAA
20965887 GG
130 GG
* * * * *
20965889 GATATTCGATTATTTTGAGCAAATGCGAAATTGTAACCCAACACGTTAGGGCACTATTCCGCGAA
1 GATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCC-CGAA
* *
20965954 TTGCCAAATGTCGAATC-TCGACTTCGTTTTAAAGAATTTTTAA
65 TTGCCAAATATCGAA-CATCGCCTTCGTTTTAAAGAATTTTTAA
20965997 GTGAATACTT
Statistics
Matches: 389, Mismatches: 96, Indels: 30
0.76 0.19 0.06
Matches are distributed among these distances:
128 3 0.01
129 87 0.22
130 9 0.02
131 100 0.26
132 185 0.48
133 5 0.01
ACGTcount: A:0.33, C:0.19, G:0.20, T:0.28
Consensus pattern (131 bp):
GATATTCGATTATTTTGAGCAAACGAGAAATTGCAACCCAGCACGTTAGGGCACGATTCCCGAAT
TGCCAAATATCGAACATCGCCTTCGTTTTAAAGAATTTTTAAAAGACATGAGTGAAATTTTGAAG
G
Found at i:20971951 original size:40 final size:40
Alignment explanation
Indices: 20971875--20972056 Score: 296
Period size: 40 Copynumber: 4.6 Consensus size: 40
20971865 AACCCAAGTA
* * *
20971875 CCTTCGGGATTTAG-CCGGATATAG-CAACTTGTACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACTAGCACAAATG
*
20971914 CCTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
*
20971954 CCTTCGGGACTTAGCCCGGATATAGTTACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
20971994 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
20972034 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
20972057 CATTCGAATA
Statistics
Matches: 134, Mismatches: 7, Indels: 3
0.93 0.05 0.02
Matches are distributed among these distances:
39 12 0.09
40 121 0.90
41 1 0.01
ACGTcount: A:0.26, C:0.26, G:0.23, T:0.25
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCACAAATG
Found at i:20980672 original size:20 final size:20
Alignment explanation
Indices: 20980630--20980673 Score: 52
Period size: 20 Copynumber: 2.2 Consensus size: 20
20980620 TTTTTTTGAA
*
20980630 TTTTTATGAATATTTACATT
1 TTTTTATGAATATTTACAAT
* * *
20980650 TTTTTTTGAATTTTTATAAT
1 TTTTTATGAATATTTACAAT
20980670 TTTT
1 TTTT
20980674 GAATTATTTG
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.25, C:0.02, G:0.05, T:0.68
Consensus pattern (20 bp):
TTTTTATGAATATTTACAAT
Found at i:20982470 original size:17 final size:18
Alignment explanation
Indices: 20982440--20982473 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
20982430 ATGTATTATT
*
20982440 TTTTTTGTTGAAATAATG
1 TTTTTTGATGAAATAATG
20982458 TTTTTTGAT-AAATAAT
1 TTTTTTGATGAAATAAT
20982474 ACTAAATTTA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 7 0.47
18 8 0.53
ACGTcount: A:0.32, C:0.00, G:0.12, T:0.56
Consensus pattern (18 bp):
TTTTTTGATGAAATAATG
Found at i:20987487 original size:21 final size:22
Alignment explanation
Indices: 20987463--20987504 Score: 68
Period size: 21 Copynumber: 2.0 Consensus size: 22
20987453 GAAAATAAAT
*
20987463 ATAAATAATATAA-TTAAGAAC
1 ATAAATAACATAATTTAAGAAC
20987484 ATAAATAACATAATTTAAGAA
1 ATAAATAACATAATTTAAGAA
20987505 AAGAAATATC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 12 0.63
22 7 0.37
ACGTcount: A:0.62, C:0.05, G:0.05, T:0.29
Consensus pattern (22 bp):
ATAAATAACATAATTTAAGAAC
Found at i:20987511 original size:22 final size:21
Alignment explanation
Indices: 20987465--20987512 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 21
20987455 AAATAAATAT
* * *
20987465 AAATAATATAATTAAGAACAT
1 AAATAACATAATTAAGAAAAG
20987486 AAATAACATAATTTAAGAAAAG
1 AAATAACATAA-TTAAGAAAAG
20987508 AAATA
1 AAATA
20987513 TCACAAATAA
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
21 10 0.43
22 13 0.57
ACGTcount: A:0.65, C:0.04, G:0.06, T:0.25
Consensus pattern (21 bp):
AAATAACATAATTAAGAAAAG
Found at i:20987526 original size:4 final size:4
Alignment explanation
Indices: 20987517--20987542 Score: 52
Period size: 4 Copynumber: 6.5 Consensus size: 4
20987507 GAAATATCAC
20987517 AAAT AAAT AAAT AAAT AAAT AAAT AA
1 AAAT AAAT AAAT AAAT AAAT AAAT AA
20987543 TGCACTTATC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 22 1.00
ACGTcount: A:0.77, C:0.00, G:0.00, T:0.23
Consensus pattern (4 bp):
AAAT
Found at i:20987884 original size:5 final size:5
Alignment explanation
Indices: 20987874--20987898 Score: 50
Period size: 5 Copynumber: 5.0 Consensus size: 5
20987864 TATATTCATA
20987874 TTTTG TTTTG TTTTG TTTTG TTTTG
1 TTTTG TTTTG TTTTG TTTTG TTTTG
20987899 GTATGGTATT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 20 1.00
ACGTcount: A:0.00, C:0.00, G:0.20, T:0.80
Consensus pattern (5 bp):
TTTTG
Found at i:20991183 original size:66 final size:65
Alignment explanation
Indices: 20991107--20991272 Score: 215
Period size: 65 Copynumber: 2.5 Consensus size: 65
20991097 GAAAACTGGA
* * * ** *
20991107 GGGTATACTGATTTATGCAATACGGCCAAGTCACATGCCCGTTTGCTAGGCCGTGTGCCAATTAG
1 GGGTATACTGACTTATACAACACGGCC-AGTCACACACCCGTATGCTAGGCCGTGTGCCAATTAG
20991172 G
65 G
* * *
20991173 GGGTATACTGACTTGTACCACACGGCCAGTCACACACCTGTATGCTAGGCCGTGTGCCAATTAGG
1 GGGTATACTGACTTATACAACACGGCCAGTCACACACCCGTATGCTAGGCCGTGTGCCAATTAGG
* * *
20991238 GGGTATATTGACTTGTACCACACGGCCAGTCACAC
1 GGGTATACTGACTTATACAACACGGCCAGTCACAC
20991273 GCCCATGTGT
Statistics
Matches: 90, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
65 68 0.76
66 22 0.24
ACGTcount: A:0.23, C:0.26, G:0.26, T:0.25
Consensus pattern (65 bp):
GGGTATACTGACTTATACAACACGGCCAGTCACACACCCGTATGCTAGGCCGTGTGCCAATTAGG
Found at i:20991229 original size:65 final size:65
Alignment explanation
Indices: 20991150--20991272 Score: 237
Period size: 65 Copynumber: 1.9 Consensus size: 65
20991140 CATGCCCGTT
20991150 TGCTAGGCCGTGTGCCAATTAGGGGGTATACTGACTTGTACCACACGGCCAGTCACACACCTGTA
1 TGCTAGGCCGTGTGCCAATTAGGGGGTATACTGACTTGTACCACACGGCCAGTCACACACCTGTA
*
20991215 TGCTAGGCCGTGTGCCAATTAGGGGGTATATTGACTTGTACCACACGGCCAGTCACAC
1 TGCTAGGCCGTGTGCCAATTAGGGGGTATACTGACTTGTACCACACGGCCAGTCACAC
20991273 GCCCATGTGT
Statistics
Matches: 57, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
65 57 1.00
ACGTcount: A:0.23, C:0.27, G:0.27, T:0.24
Consensus pattern (65 bp):
TGCTAGGCCGTGTGCCAATTAGGGGGTATACTGACTTGTACCACACGGCCAGTCACACACCTGTA
Found at i:20992275 original size:28 final size:28
Alignment explanation
Indices: 20992234--20992292 Score: 100
Period size: 28 Copynumber: 2.1 Consensus size: 28
20992224 ATACCGTTGA
*
20992234 ATACTCAATGTCTCGCACACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
*
20992262 ATACTCGATATCTCGCACACTAAGTGCC
1 ATACTCAATATCTCGCACACTAAGTGCC
20992290 ATA
1 ATA
20992293 TATAGCCGAA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
28 29 1.00
ACGTcount: A:0.31, C:0.31, G:0.14, T:0.25
Consensus pattern (28 bp):
ATACTCAATATCTCGCACACTAAGTGCC
Found at i:20997946 original size:4 final size:4
Alignment explanation
Indices: 20997937--20997961 Score: 50
Period size: 4 Copynumber: 6.2 Consensus size: 4
20997927 TATCAAGTAA
20997937 ACAT ACAT ACAT ACAT ACAT ACAT A
1 ACAT ACAT ACAT ACAT ACAT ACAT A
20997962 TATATATATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 21 1.00
ACGTcount: A:0.52, C:0.24, G:0.00, T:0.24
Consensus pattern (4 bp):
ACAT
Found at i:21008229 original size:13 final size:13
Alignment explanation
Indices: 21008211--21008272 Score: 99
Period size: 13 Copynumber: 4.8 Consensus size: 13
21008201 TAGTATTTAT
21008211 AGACTTAGCTAAC
1 AGACTTAGCTAAC
21008224 AGACTTAGCTAAC
1 AGACTTAGCTAAC
*
21008237 AAACTTAGCTAAC
1 AGACTTAGCTAAC
*
21008250 AAACTT-GCTAAC
1 AGACTTAGCTAAC
21008262 AGACTTAGCTA
1 AGACTTAGCTA
21008273 CTCATAACAG
Statistics
Matches: 46, Mismatches: 2, Indels: 2
0.92 0.04 0.04
Matches are distributed among these distances:
12 11 0.24
13 35 0.76
ACGTcount: A:0.40, C:0.23, G:0.13, T:0.24
Consensus pattern (13 bp):
AGACTTAGCTAAC
Found at i:21008249 original size:26 final size:25
Alignment explanation
Indices: 21008213--21008272 Score: 93
Period size: 25 Copynumber: 2.4 Consensus size: 25
21008203 GTATTTATAG
*
21008213 ACTTAGCTAACAGACTTAGCTAACAA
1 ACTTAGCTAACAAACTT-GCTAACAA
*
21008239 ACTTAGCTAACAAACTTGCTAACAG
1 ACTTAGCTAACAAACTTGCTAACAA
21008264 ACTTAGCTA
1 ACTTAGCTA
21008273 CTCATAACAG
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
25 16 0.50
26 16 0.50
ACGTcount: A:0.40, C:0.23, G:0.12, T:0.25
Consensus pattern (25 bp):
ACTTAGCTAACAAACTTGCTAACAA
Found at i:21012733 original size:13 final size:13
Alignment explanation
Indices: 21012717--21012765 Score: 73
Period size: 13 Copynumber: 3.8 Consensus size: 13
21012707 TAGTATTTAT
*
21012717 AGACTTAGCTAAT
1 AGACTTAGCTAAC
21012730 AGACTTAGCTAAC
1 AGACTTAGCTAAC
*
21012743 AAACTT-GCTAAC
1 AGACTTAGCTAAC
21012755 AGACTTAGCTA
1 AGACTTAGCTA
21012766 GTTGTAGCGA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
12 11 0.34
13 21 0.66
ACGTcount: A:0.39, C:0.20, G:0.14, T:0.27
Consensus pattern (13 bp):
AGACTTAGCTAAC
Found at i:21014196 original size:3 final size:3
Alignment explanation
Indices: 21014188--21014244 Score: 96
Period size: 3 Copynumber: 19.0 Consensus size: 3
21014178 GTATATACAT
* *
21014188 ATA ATA ATA ATG ATG ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
21014236 ATA ATA ATA
1 ATA ATA ATA
21014245 TGAAAATATA
Statistics
Matches: 52, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.63, C:0.00, G:0.04, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:21015317 original size:17 final size:17
Alignment explanation
Indices: 21015295--21015328 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
21015285 GACGGGTTAT
21015295 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
21015312 TGGGTTGTTTGGTTTAG
1 TGGGTTGTTTGGTTTAG
21015329 GGCCCAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.06, C:0.00, G:0.41, T:0.53
Consensus pattern (17 bp):
TGGGTTGTTTGGTTTAG
Found at i:21016086 original size:72 final size:72
Alignment explanation
Indices: 21015995--21016146 Score: 193
Period size: 72 Copynumber: 2.1 Consensus size: 72
21015985 TGAAACTTAA
** * ** *
21015995 TTTGAAAAGCAGATTTTGAAAATACCTCAAT-G-AGTCTTGAGGCTCAACTCATTTCTCGCAATA
1 TTTGAAAAGCAGAAATTGAAAATACCTC-ATCGTA-TCCTGAGGCTCAACTCACCTCTAGCAATA
21016058 TGAGTTGAAT
64 TGAGTTG-AT
*
21016068 TTTGAAAA-CAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
1 TTTGAAAAGCAGAAATTGAAAATACCTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
21016132 AGTTGAT
66 AGTTGAT
21016139 TTTGAAAA
1 TTTGAAAA
21016147 AGTAGGAATT
Statistics
Matches: 70, Mismatches: 7, Indels: 6
0.84 0.08 0.07
Matches are distributed among these distances:
71 12 0.17
72 49 0.70
73 9 0.13
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.32
Consensus pattern (72 bp):
TTTGAAAAGCAGAAATTGAAAATACCTCATCGTATCCTGAGGCTCAACTCACCTCTAGCAATATG
AGTTGAT
Found at i:21016235 original size:127 final size:127
Alignment explanation
Indices: 21016048--21016568 Score: 924
Period size: 127 Copynumber: 4.1 Consensus size: 127
21016038 TCAACTCATT
21016048 TCTCGCAATATGAGTTGAATT-TTGA-AAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCT
1 TCTCGCAATATGAGTTG-ATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCT
21016111 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
65 CAACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
*
21016174 TCTCGCAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
21016239 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
*
21016301 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTCAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
*
21016366 AACTCACATCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
21016428 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
1 TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
* ** * *
21016493 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAA-CAAAAATGAAAAGGCTT-AACTCACC
66 AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGG-TTCAACCCACC
21016554 TCTCGCAATATGAGT
1 TCTCGCAATATGAGT
21016569 CAATTTAAAA
Statistics
Matches: 381, Mismatches: 11, Indels: 6
0.96 0.03 0.02
Matches are distributed among these distances:
125 3 0.01
126 53 0.14
127 325 0.85
ACGTcount: A:0.35, C:0.20, G:0.16, T:0.28
Consensus pattern (127 bp):
TCTCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTC
AACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACC
Found at i:21016522 original size:254 final size:252
Alignment explanation
Indices: 21016048--21016643 Score: 921
Period size: 254 Copynumber: 2.4 Consensus size: 252
21016038 TCAACTCATT
*
21016048 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCA
1 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCATCGTATCCTCAGGCTCA
*
21016113 ACTCACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTCTC
66 ACTCACATCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTCTC
*
21016178 GCAATATGAGTTGATTCTTGACAGACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACT
131 GCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACT
* ** *
21016243 CACCTCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGG-TTCAACCCACC
196 CACCTCTAGCAATATGAGTTGATTTTGAAAAA-CAAAAATGAAAAGGCTT-AACCCACC
21016301 TCTCGCAATATGAGTTG-ATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTCAGGCT
1 TCTCGCAATATGAGTTGAATT-TTGA-AAACAGAAATTGAAATTACCTCATCGTATCCTCAGGCT
21016365 CAACTCACATCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTC
64 CAACTCACATCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTC
21016430 TCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAA
129 TCGCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAA
*
21016495 CTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATGAAAAGGCTTAACTCACC
194 CTCACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATGAAAAGGCTTAACCCACC
* * * *
21016554 TCTCGCAATATGAG-TCAA-TTT-AAAAC-----TAGAAA-TACCTCA--GCATGCCCCGAGGCT
1 TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCATCGTAT-CCTC-AGGCT
* *
21016608 CAACTCACTTCTCGCAATATGAGTTGATTTTGAAAA
64 CAACTCACATCTAGCAATATGAGTTGATTTTGAAAA
21016644 CAAAAATTAA
Statistics
Matches: 323, Mismatches: 14, Indels: 22
0.90 0.04 0.06
Matches are distributed among these distances:
241 3 0.01
242 3 0.01
243 46 0.14
244 5 0.02
249 4 0.01
250 1 0.00
251 2 0.01
252 5 0.02
253 53 0.16
254 201 0.62
ACGTcount: A:0.35, C:0.21, G:0.16, T:0.28
Consensus pattern (252 bp):
TCTCGCAATATGAGTTGAATTTTGAAAACAGAAATTGAAATTACCTCATCGTATCCTCAGGCTCA
ACTCACATCTAGCAATATGAGTTGATTTTGAAAAAGTAGGAATTAAAAGGTTCAACCCACCTCTC
GCAATATGAGTTGATTCTTGACAAACAGAAATTGAAATTACCTCATCGTATCCTGAGGCTCAACT
CACCTCTAGCAATATGAGTTGATTTTGAAAAACAAAAATGAAAAGGCTTAACCCACC
Found at i:21079455 original size:16 final size:16
Alignment explanation
Indices: 21079431--21079461 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
21079421 TATGTACCGA
*
21079431 AAATTTAAATAAATAT
1 AAATATAAATAAATAT
21079447 AAATATAAATAAATA
1 AAATATAAATAAATA
21079462 GATAACAATA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (16 bp):
AAATATAAATAAATAT
Found at i:21079961 original size:8 final size:9
Alignment explanation
Indices: 21079946--21079972 Score: 54
Period size: 9 Copynumber: 3.0 Consensus size: 9
21079936 AGAACGCAAG
21079946 AAGAAAAAA
1 AAGAAAAAA
21079955 AAGAAAAAA
1 AAGAAAAAA
21079964 AAGAAAAAA
1 AAGAAAAAA
21079973 TAAAGGGAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 18 1.00
ACGTcount: A:0.89, C:0.00, G:0.11, T:0.00
Consensus pattern (9 bp):
AAGAAAAAA
Found at i:21080554 original size:15 final size:15
Alignment explanation
Indices: 21080534--21080565 Score: 64
Period size: 15 Copynumber: 2.1 Consensus size: 15
21080524 GAGAGTTGGA
21080534 GGCGTGGCAGACGAG
1 GGCGTGGCAGACGAG
21080549 GGCGTGGCAGACGAG
1 GGCGTGGCAGACGAG
21080564 GG
1 GG
21080566 GGCCACGCAT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.19, C:0.19, G:0.56, T:0.06
Consensus pattern (15 bp):
GGCGTGGCAGACGAG
Found at i:21080909 original size:46 final size:46
Alignment explanation
Indices: 21080844--21081163 Score: 435
Period size: 46 Copynumber: 7.0 Consensus size: 46
21080834 TTATCTTTGA
* * * ** * *
21080844 CATGATGCCATAGTGTCTTTCAATTATGGTCTTACTCATTTTC-TGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATAT
* ** ***
21080890 CATGTTGCCATGGTATCTTTCAACTATGGTCTTATTCATTTCCCGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
21080936 TATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
21080982 CATGTTGCCATGGTATCTTTCAACCGTGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
* ** *
21081028 CATGTTTCCATGGTATCTTTCAACCATGGTCTTATTCATTTCATGT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
21081074 CACGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
*
21081120 TATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
21081164 TTCAAAGAGC
Statistics
Matches: 246, Mismatches: 27, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
45 4 0.02
46 242 0.98
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (46 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATAT
Found at i:21081097 original size:138 final size:138
Alignment explanation
Indices: 21080844--21081163 Score: 489
Period size: 138 Copynumber: 2.3 Consensus size: 138
21080834 TTATCTTTGA
* * * ** * *
21080844 CATGATGCCATAGTGTCTTTCAATTATGGTCTTACTCATTTTC-TGTCATGTTGCCATGGTATCT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACA-TTTCATATCATGTTGCCATGGTATCT
* * * *
21080908 TTCAACTATGGTCTTATTCATTTCCCGTTATGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
65 TTCAACCATGGTCTTATTCATTTCACGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACAC
21080973 ATTTCATAT
130 ATTTCATAT
* *
21080982 CATGTTGCCATGGTATCTTTCAACCGTGGTCTTACACATTTCATATCATGTTTCCATGGTATCTT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTT
*
21081047 TCAACCATGGTCTTATTCATTTCATGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
66 TCAACCATGGTCTTATTCATTTCACGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
21081112 TTTCATAT
131 TTTCATAT
*
21081120 TATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
1 CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCAT
21081164 TTCAAAGAGC
Statistics
Matches: 165, Mismatches: 16, Indels: 2
0.90 0.09 0.01
Matches are distributed among these distances:
137 4 0.02
138 161 0.98
ACGTcount: A:0.21, C:0.23, G:0.14, T:0.42
Consensus pattern (138 bp):
CATGTTGCCATGGTATCTTTCAACCATGGTCTTACACATTTCATATCATGTTGCCATGGTATCTT
TCAACCATGGTCTTATTCATTTCACGTCACGTTGCCATGGTATCTTTCAACCATGGTCTTACACA
TTTCATAT
Found at i:21082820 original size:17 final size:17
Alignment explanation
Indices: 21082800--21082832 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
21082790 TCAATTTTCC
21082800 CTTTTCTTCTTTCTTTT
1 CTTTTCTTCTTTCTTTT
*
21082817 CTTTTTTTCTTTCTTT
1 CTTTTCTTCTTTCTTT
21082833 CCTTCCCCTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.00, C:0.21, G:0.00, T:0.79
Consensus pattern (17 bp):
CTTTTCTTCTTTCTTTT
Found at i:21087238 original size:6 final size:6
Alignment explanation
Indices: 21087227--21087259 Score: 57
Period size: 6 Copynumber: 5.3 Consensus size: 6
21087217 AATTAATATA
21087227 ATTTAT ATTTAT ATTTAT ATTTAT ATTTCAT AT
1 ATTTAT ATTTAT ATTTAT ATTTAT ATTT-AT AT
21087260 ATTGTTAGTG
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 22 0.85
7 4 0.15
ACGTcount: A:0.33, C:0.03, G:0.00, T:0.64
Consensus pattern (6 bp):
ATTTAT
Found at i:21088404 original size:22 final size:22
Alignment explanation
Indices: 21088379--21088426 Score: 96
Period size: 22 Copynumber: 2.2 Consensus size: 22
21088369 AGTCAACAAT
21088379 AATAAAACCAAATTCAAGTACA
1 AATAAAACCAAATTCAAGTACA
21088401 AATAAAACCAAATTCAAGTACA
1 AATAAAACCAAATTCAAGTACA
21088423 AATA
1 AATA
21088427 TTTTGTTTAA
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:0.60, C:0.17, G:0.04, T:0.19
Consensus pattern (22 bp):
AATAAAACCAAATTCAAGTACA
Found at i:21094245 original size:96 final size:96
Alignment explanation
Indices: 21094079--21094268 Score: 290
Period size: 96 Copynumber: 2.0 Consensus size: 96
21094069 GTGTCCGAAG
* * * * * * *
21094079 AAGTCTGTTATCGATGGGAATGATGGAGCAGACATGGAGCCCAAGAAGCTTGGTTTGAGCAAGGG
1 AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTAGTTTGAGCAAAGG
21094144 AAAAGCTGAAGCCAAGAAGGCAAAGAGGAGC
66 AAAAGCTGAAGCCAAGAAGGCAAAGAGGAGC
*
21094175 AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGTTTAGTTTGAGCAAAGG
1 AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTAGTTTGAGCAAAGG
* *
21094240 TAAAGCTGAAGCCAAGAAGGCTAAGAGGA
66 AAAAGCTGAAGCCAAGAAGGCAAAGAGGA
21094269 TCAAAAAGAA
Statistics
Matches: 84, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
96 84 1.00
ACGTcount: A:0.37, C:0.15, G:0.33, T:0.15
Consensus pattern (96 bp):
AAGTCTGTCATCAAAGGGAACGATGGAGCAGACAAGGAGCCCAAGAAGCTTAGTTTGAGCAAAGG
AAAAGCTGAAGCCAAGAAGGCAAAGAGGAGC
Found at i:21099551 original size:14 final size:15
Alignment explanation
Indices: 21099529--21099559 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
21099519 TTTATTCGAG
21099529 TTAATTTTTAAAAAA
1 TTAATTTTTAAAAAA
*
21099544 TTAATTTTAAAAAAA
1 TTAATTTTTAAAAAA
21099559 T
1 T
21099560 CCAAAAATAA
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (15 bp):
TTAATTTTTAAAAAA
Found at i:21104875 original size:23 final size:23
Alignment explanation
Indices: 21104816--21104887 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
21104806 AAGTATGATG
*
21104816 TAATAATAATATAAAATAACAT-A
1 TAATAA-AATATAAAATAATATAA
* * *
21104839 TATTAAAGTGTAAAATAATATAA
1 TAATAAAATATAAAATAATATAA
*
21104862 TAATAAAATATAAAATAGTATAA
1 TAATAAAATATAAAATAATATAA
21104885 TAA
1 TAA
21104888 ATATTATGTA
Statistics
Matches: 40, Mismatches: 8, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
22 12 0.30
23 28 0.70
ACGTcount: A:0.62, C:0.01, G:0.04, T:0.32
Consensus pattern (23 bp):
TAATAAAATATAAAATAATATAA
Found at i:21104907 original size:24 final size:25
Alignment explanation
Indices: 21104875--21104940 Score: 66
Period size: 24 Copynumber: 2.6 Consensus size: 25
21104865 TAAAATATAA
* *
21104875 AATAGTATAATAAATATTATGT-AAT
1 AATAATATAATAAATA-TAGGTAAAT
21104900 AA-AATATAATATAGATATAGGTAAAT
1 AATAATATAATA-A-ATATAGGTAAAT
21104926 AATAATAT-ATAAATA
1 AATAATATAATAAATA
21104941 AAGTTTATTT
Statistics
Matches: 35, Mismatches: 2, Indels: 9
0.76 0.04 0.20
Matches are distributed among these distances:
24 11 0.31
25 8 0.23
26 11 0.31
27 5 0.14
ACGTcount: A:0.58, C:0.00, G:0.08, T:0.35
Consensus pattern (25 bp):
AATAATATAATAAATATAGGTAAAT
Done.