Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr02 99090824
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: 99090824
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Warning! 317 characters in sequence are not A, C, G, or T
File 69 of 318
Found at i:19972760 original size:49 final size:49
Alignment explanation
Indices: 19972700--19973003 Score: 473
Period size: 49 Copynumber: 6.4 Consensus size: 49
19972690 TACATATGTG
* * * *
19972700 TGTGATAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
* *
19972749 TGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
19972798 TGTGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
19972847 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAA--G--TG--TA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
*
19972890 --TG-TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
19972936 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
1 TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
19972985 TGTGATAAGGCCTAATGGC
1 TGTGATAAGGCCTAATGGC
19973004 TAATGTAAAA
Statistics
Matches: 236, Mismatches: 10, Indels: 18
0.89 0.04 0.07
Matches are distributed among these distances:
40 32 0.14
41 2 0.01
42 1 0.00
43 2 0.01
44 2 0.01
45 2 0.01
46 2 0.01
47 1 0.00
48 2 0.01
49 190 0.81
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (49 bp):
TGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATA
Found at i:19972903 original size:89 final size:89
Alignment explanation
Indices: 19972705--19972982 Score: 421
Period size: 89 Copynumber: 3.0 Consensus size: 89
19972695 ATGTGTGTGA
* * * *
19972705 TAAGGCCGAATGGCCAATGCGATGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
*
19972770 ATGTGATGAATGTGAAAGTGGATGTATATG
66 ATGTGGTGAATGTGAAA---G-TG--TATG
19972800 TGATGAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGG
1 T-A--AGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGG
19972865 CCGATGTGGTGAATGTGAAAGTGTATG
63 CCGATGTGGTGAATGTGAAAGTGTATG
*
19972892 TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
19972957 ATGTGGTGAATGTGAAAGTGTATG
66 ATGTGGTGAATGTGAAAGTGTATG
19972981 TA
1 TA
19972983 TATGTGATAA
Statistics
Matches: 174, Mismatches: 6, Indels: 12
0.91 0.03 0.06
Matches are distributed among these distances:
89 88 0.51
91 1 0.01
92 5 0.03
94 2 0.01
95 2 0.01
96 1 0.01
98 75 0.43
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (89 bp):
TAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATG
Found at i:19972978 original size:138 final size:138
Alignment explanation
Indices: 19972754--19973003 Score: 464
Period size: 138 Copynumber: 1.8 Consensus size: 138
19972744 GTATATGTGA
* *
19972754 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGATGTATATGTGATGAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGGATGTATATGTGATAAGGCCTAATGGCCG
19972819 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAA
66 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAA
19972884 AGTGTATG
131 AGTGTATG
* *
19972892 TAAGGCCTAATGGCCGATGTGGTGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCG
1 TAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGGATGTATATGTGATAAGGCCTAATGGCCG
19972957 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
66 ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGC
19973004 TAATGTAAAA
Statistics
Matches: 108, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
138 108 1.00
ACGTcount: A:0.29, C:0.09, G:0.33, T:0.29
Consensus pattern (138 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTAAAAGTGGATGTATATGTGATAAGGCCTAATGGCCG
ATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAA
AGTGTATG
Found at i:19973009 original size:89 final size:90
Alignment explanation
Indices: 19972727--19973013 Score: 368
Period size: 89 Copynumber: 3.1 Consensus size: 90
19972717 GCCAATGCGA
* * *
19972727 TGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGGA
1 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
*
19972792 TGTATATGTGATGAGGCCTAATGGCC
66 TGTATATGTGATAAGGCCTAATGG-C
*
19972818 GATGTGGTGAATGTGAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGA
1 -------TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGA
* * *
19972883 AAGTGTATGTA-A-G-GCCTAATGGCC-GATGTGG
59 AAGTGTATGTATATGTG-ATAA-GGCCTAATG-GC
19972914 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
1 TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
19972979 TGTATATGTGATAAGGCCTAATGGC
66 TGTATATGTGATAAGGCCTAATGGC
19973004 T-AATGTAAAA
1 TGAATGTAAAA
19973014 TATATGTGTG
Statistics
Matches: 172, Mismatches: 10, Indels: 23
0.84 0.05 0.11
Matches are distributed among these distances:
89 77 0.45
90 7 0.04
91 7 0.04
92 1 0.01
95 1 0.01
96 6 0.03
97 6 0.03
98 67 0.39
ACGTcount: A:0.30, C:0.08, G:0.32, T:0.30
Consensus pattern (90 bp):
TGAATGTAAAAGTGTATGTATATGTGATAAGGCCTAATGGCCGATGTGGTGAATGTGAAAGTGTA
TGTATATGTGATAAGGCCTAATGGC
Found at i:19973155 original size:37 final size:37
Alignment explanation
Indices: 19973105--19973189 Score: 152
Period size: 37 Copynumber: 2.3 Consensus size: 37
19973095 GGAATCTGTT
*
19973105 CCGGGTGAGACCCGATGACTACGTGTGGAGATTATGA
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
*
19973142 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGT
1 CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
19973179 CCGGGTAAGAC
1 CCGGGTAAGAC
19973190 TTCTTTTATA
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 46 1.00
ACGTcount: A:0.25, C:0.20, G:0.34, T:0.21
Consensus pattern (37 bp):
CCGGGTAAGACCCGATGACTACGTGTGGAGATTATGA
Found at i:19974977 original size:21 final size:22
Alignment explanation
Indices: 19974951--19974992 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19974941 CACTTGACAC
19974951 AGGGGCAA-ACGCCCATGTGAA
1 AGGGGCAACACGCCCATGTGAA
*
19974972 AGGGGCAACACGCCCGTGTGA
1 AGGGGCAACACGCCCATGTGA
19974993 TTAATTTTAC
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
21 8 0.42
22 11 0.58
ACGTcount: A:0.29, C:0.26, G:0.36, T:0.10
Consensus pattern (22 bp):
AGGGGCAACACGCCCATGTGAA
Found at i:19975291 original size:67 final size:67
Alignment explanation
Indices: 19975183--19975324 Score: 275
Period size: 67 Copynumber: 2.1 Consensus size: 67
19975173 TCGTGCCCTA
*
19975183 GCCCGTGTACAAAGTCCTGGACATTCTGTTTCTGACATCAGCATTTCTTAAGGGTAACACGGCCA
1 GCCCGTGTACAAAGACCTGGACATTCTGTTTCTGACATCAGCATTTCTTAAGGGTAACACGGCCA
19975248 AT
66 AT
19975250 GCCCGTGTACAAAGACCTGGACATTCTGTTTCTGACATCAGCATTTCTTAAGGGTAACACGGCCA
1 GCCCGTGTACAAAGACCTGGACATTCTGTTTCTGACATCAGCATTTCTTAAGGGTAACACGGCCA
19975315 AT
66 AT
19975317 GCCCGTGT
1 GCCCGTGT
19975325 GCTAGACCGT
Statistics
Matches: 74, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
67 74 1.00
ACGTcount: A:0.25, C:0.26, G:0.22, T:0.27
Consensus pattern (67 bp):
GCCCGTGTACAAAGACCTGGACATTCTGTTTCTGACATCAGCATTTCTTAAGGGTAACACGGCCA
AT
Found at i:19976343 original size:46 final size:46
Alignment explanation
Indices: 19976207--19976428 Score: 247
Period size: 47 Copynumber: 4.7 Consensus size: 46
19976197 GGTAAGGTGT
* * * *
19976207 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATATCTCAAGT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCTTACATCTCGAGG
*
19976254 CGATGCCATGTCCCAGACATTGTCTTACACTGAC-TATCATCTCGAGG
1 CGATGCCATGTCCCAGACA-TGTCTTACACTGGCTTA-CATCTCGAGG
* *
19976301 CGGATG-CATGTCCCAAACATGTCTTACACTGGCTTACGTCTCGAGG
1 C-GATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGG
* *
19976347 CTGATG-CATGTCCCAGACATGTCTTACACTAGGACTT--GTCTCGATGT
1 C-GATGCCATGTCCCAGACATGTCTTACACT-GG-CTTACATCTCGA-GG
19976394 CGATGCCATGTCCCAGACATGGTCTTACACTGGCT
1 CGATGCCATGTCCCAGACAT-GTCTTACACTGGCT
19976429 CACAATAACC
Statistics
Matches: 155, Mismatches: 11, Indels: 19
0.84 0.06 0.10
Matches are distributed among these distances:
46 64 0.41
47 73 0.47
48 18 0.12
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (46 bp):
CGATGCCATGTCCCAGACATGTCTTACACTGGCTTACATCTCGAGG
Found at i:19978621 original size:15 final size:15
Alignment explanation
Indices: 19978603--19978657 Score: 51
Period size: 15 Copynumber: 3.5 Consensus size: 15
19978593 AGCCATCCCC
19978603 TTTTATTCTATT-TTA
1 TTTTATT-TATTATTA
19978618 TTTTATTTATTATTA
1 TTTTATTTATTATTA
*
19978633 TTTGT-TATATTATTTA
1 TTT-TATTTATTA-TTA
19978649 TTTTTATTT
1 -TTTTATTT
19978658 TACTAATTTT
Statistics
Matches: 33, Mismatches: 2, Indels: 8
0.77 0.05 0.19
Matches are distributed among these distances:
14 4 0.12
15 19 0.58
16 5 0.15
17 5 0.15
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.75
Consensus pattern (15 bp):
TTTTATTTATTATTA
Found at i:19978640 original size:22 final size:22
Alignment explanation
Indices: 19978615--19978657 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
19978605 TTATTCTATT
*
19978615 TTATTTTATTTATTATTATTTG
1 TTATATTATTTATTATTATTTG
*
19978637 TTATATTATTTATTTTTATTT
1 TTATATTATTTATTATTATTT
19978658 TACTAATTTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.23, C:0.00, G:0.02, T:0.74
Consensus pattern (22 bp):
TTATATTATTTATTATTATTTG
Found at i:19978758 original size:22 final size:24
Alignment explanation
Indices: 19978712--19978756 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
19978702 TTTTTAAATT
*
19978712 TATTTTAAATTTTTTTGTTATTTA
1 TATTTTAAATTTTATTGTTATTTA
*
19978736 TATTTTATATTTTATT-TTATT
1 TATTTTAAATTTTATTGTTATT
19978757 ATTATTATTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
23 5 0.26
24 14 0.74
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.73
Consensus pattern (24 bp):
TATTTTAAATTTTATTGTTATTTA
Found at i:19984022 original size:36 final size:36
Alignment explanation
Indices: 19983945--19984022 Score: 104
Period size: 36 Copynumber: 2.2 Consensus size: 36
19983935 AAATCAAACT
19983945 CAATAACAAACAAAGAACACAAAATCTTCAAAGAAG
1 CAATAACAAACAAAGAACACAAAATCTTCAAAGAAG
* ** *
19983981 AAATAACAAACAAAGAACTTAGAATCTTCACAA-AAG
1 CAATAACAAACAAAGAACACAAAATCTTCA-AAGAAG
19984017 CAATAA
1 CAATAA
19984023 AGAACTCAAT
Statistics
Matches: 36, Mismatches: 5, Indels: 2
0.84 0.12 0.05
Matches are distributed among these distances:
36 34 0.94
37 2 0.06
ACGTcount: A:0.60, C:0.18, G:0.08, T:0.14
Consensus pattern (36 bp):
CAATAACAAACAAAGAACACAAAATCTTCAAAGAAG
Found at i:19985905 original size:17 final size:17
Alignment explanation
Indices: 19985885--19985922 Score: 58
Period size: 17 Copynumber: 2.2 Consensus size: 17
19985875 TATAAAATAT
*
19985885 TTTTATAACTTTATTTA
1 TTTTATAACTTTATTGA
*
19985902 TTTTATAATTTTATTGA
1 TTTTATAACTTTATTGA
19985919 TTTT
1 TTTT
19985923 TTAGATGATG
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.26, C:0.03, G:0.03, T:0.68
Consensus pattern (17 bp):
TTTTATAACTTTATTGA
Found at i:19986801 original size:10 final size:10
Alignment explanation
Indices: 19986786--19986810 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
19986776 TGCTTATAAT
19986786 TCATACCAAA
1 TCATACCAAA
19986796 TCATACCAAA
1 TCATACCAAA
19986806 TCATA
1 TCATA
19986811 AGCCAAAATC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.48, C:0.28, G:0.00, T:0.24
Consensus pattern (10 bp):
TCATACCAAA
Found at i:19988084 original size:18 final size:18
Alignment explanation
Indices: 19988061--19988120 Score: 57
Period size: 18 Copynumber: 3.3 Consensus size: 18
19988051 TTAGTAATAG
*
19988061 TCAATTAATCGATAACAA
1 TCAATTAATCAATAACAA
* *
19988079 TCAATTATTCAATAATAA
1 TCAATTAATCAATAACAA
* * * *
19988097 TCAGTTATTCAGTATCAA
1 TCAATTAATCAATAACAA
19988115 TCAATT
1 TCAATT
19988121 GATCGGTTAT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
18 34 1.00
ACGTcount: A:0.43, C:0.15, G:0.05, T:0.37
Consensus pattern (18 bp):
TCAATTAATCAATAACAA
Found at i:19988192 original size:19 final size:19
Alignment explanation
Indices: 19988143--19988194 Score: 61
Period size: 18 Copynumber: 2.8 Consensus size: 19
19988133 AGTAACAGTC
*
19988143 AATTATTCAGTAAAAATTA
1 AATTATTCAGTAACAATTA
* **
19988162 GA-TACACAGTAACAATTA
1 AATTATTCAGTAACAATTA
19988180 AATTATTCAGTAACA
1 AATTATTCAGTAACA
19988195 GTCGATCTTT
Statistics
Matches: 25, Mismatches: 7, Indels: 2
0.74 0.21 0.06
Matches are distributed among these distances:
18 14 0.56
19 11 0.44
ACGTcount: A:0.50, C:0.12, G:0.08, T:0.31
Consensus pattern (19 bp):
AATTATTCAGTAACAATTA
Found at i:19988431 original size:53 final size:53
Alignment explanation
Indices: 19988316--19988436 Score: 163
Period size: 53 Copynumber: 2.3 Consensus size: 53
19988306 TCGGAACAGT
* ** *
19988316 AACAGTAACAGTAGCAGTACGGTACACAGAATACCTCATTGGAACAAATCTGG
1 AACAGTAACAGTAACAGTACGGTACACAGAATACCTCATCAGAACAAATCTGA
* * *
19988369 AACAATAACAATAACAGTACGGTACACAGACTACCTCATCAGAACAAAT-TCGA
1 AACAGTAACAGTAACAGTACGGTACACAGAATACCTCATCAGAACAAATCT-GA
19988422 AACAGTAACAGTAAC
1 AACAGTAACAGTAAC
19988437 GGTAACAGTA
Statistics
Matches: 58, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
52 1 0.02
53 57 0.98
ACGTcount: A:0.45, C:0.22, G:0.16, T:0.17
Consensus pattern (53 bp):
AACAGTAACAGTAACAGTACGGTACACAGAATACCTCATCAGAACAAATCTGA
Found at i:19988648 original size:16 final size:16
Alignment explanation
Indices: 19988619--19988652 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
19988609 TAATTCACTT
19988619 TTCAATTTTCAATTAA
1 TTCAATTTTCAATTAA
19988635 TTCATATTTT-AATTAA
1 TTCA-ATTTTCAATTAA
19988651 TT
1 TT
19988653 AACTATATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 12 0.71
17 5 0.29
ACGTcount: A:0.35, C:0.09, G:0.00, T:0.56
Consensus pattern (16 bp):
TTCAATTTTCAATTAA
Found at i:19988912 original size:2 final size:2
Alignment explanation
Indices: 19988905--19988930 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
19988895 CACCTACTAC
19988905 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
19988931 TAAATAATAA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:19989599 original size:2 final size:2
Alignment explanation
Indices: 19989592--19989633 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
19989582 TACTTTGTTT
*
19989592 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TT TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
19989634 CTTAAATAGT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:19990466 original size:42 final size:43
Alignment explanation
Indices: 19990393--19990514 Score: 133
Period size: 42 Copynumber: 2.8 Consensus size: 43
19990383 GGTTGTTACA
* * * *
19990393 TTACATGT-AATCAAATATCAATGCCATTGTCCTAGACAGGGTC
1 TTACACGTAAATCAAATA-CGATGCCAATGTCCCAGACAGGGTC
* *
19990436 TTATACG-AAATCAAATACGATGCCAATGTCCCAGACATGGTC
1 TTACACGTAAATCAAATACGATGCCAATGTCCCAGACAGGGTC
*
19990478 TTACACGTAAATCTCAAAT-CGATGCCAACGTCCCAGA
1 TTACACGTAAA--TCAAATACGATGCCAATGTCCCAGA
19990515 TGTGGTCTTA
Statistics
Matches: 67, Mismatches: 8, Indels: 7
0.82 0.10 0.09
Matches are distributed among these distances:
42 27 0.40
43 17 0.25
44 17 0.25
45 6 0.09
ACGTcount: A:0.34, C:0.25, G:0.16, T:0.25
Consensus pattern (43 bp):
TTACACGTAAATCAAATACGATGCCAATGTCCCAGACAGGGTC
Found at i:19990511 original size:44 final size:42
Alignment explanation
Indices: 19990401--19990534 Score: 135
Period size: 44 Copynumber: 3.1 Consensus size: 42
19990391 CATTACATGT
* ** * * *
19990401 AATCAAATATCAATGCCATTGTCCTAGACAGGGTCTTATACGA
1 AATCAAATA-CGATGCCAACGTCCCAGACATGGTCTTACACGA
*
19990444 AATCAAATACGATGCCAATGTCCCAGACATGGTCTTACACGTA
1 AATCAAATACGATGCCAACGTCCCAGACATGGTCTTACACG-A
** *
19990487 AATCTCAAAT-CGATGCCAACGTCCCAGATGTGGTCTTACATGA
1 AA--TCAAATACGATGCCAACGTCCCAGACATGGTCTTACACGA
19990530 AATCA
1 AATCA
19990535 CATATCGGAA
Statistics
Matches: 79, Mismatches: 9, Indels: 8
0.82 0.09 0.08
Matches are distributed among these distances:
41 3 0.04
42 27 0.34
43 15 0.19
44 28 0.35
45 6 0.08
ACGTcount: A:0.34, C:0.24, G:0.16, T:0.25
Consensus pattern (42 bp):
AATCAAATACGATGCCAACGTCCCAGACATGGTCTTACACGA
Found at i:20011545 original size:24 final size:24
Alignment explanation
Indices: 20011518--20011604 Score: 131
Period size: 24 Copynumber: 3.6 Consensus size: 24
20011508 CTTATTATGT
*
20011518 TCGCACACATAGTGCCATAGCAAA
1 TCGCACACATAGTGCCATAGTAAA
20011542 TCGCACACATAGTGCCATAGTAAA
1 TCGCACACATAGTGCCATAGTAAA
*
20011566 TCGCACACATAGTG-CATTAATAAA
1 TCGCACACATAGTGCCA-TAGTAAA
*
20011590 TTGCACACATAGTGC
1 TCGCACACATAGTGC
20011605 ATTTGAGATA
Statistics
Matches: 58, Mismatches: 3, Indels: 3
0.91 0.05 0.05
Matches are distributed among these distances:
23 2 0.03
24 56 0.97
ACGTcount: A:0.37, C:0.25, G:0.16, T:0.22
Consensus pattern (24 bp):
TCGCACACATAGTGCCATAGTAAA
Found at i:20011605 original size:24 final size:24
Alignment explanation
Indices: 20011496--20011607 Score: 122
Period size: 24 Copynumber: 4.7 Consensus size: 24
20011486 ACCGAATGTG
* **
20011496 GCACACATAGTGC-TTATTATGTTC
1 GCACACATAGTGCATTAGTA-AATC
*
20011520 GCACACATAGTGCCA-TAGCAAATC
1 GCACACATAGTG-CATTAGTAAATC
20011544 GCACACATAGTGCCA-TAGTAAATC
1 GCACACATAGTG-CATTAGTAAATC
* *
20011568 GCACACATAGTGCATTAATAAATT
1 GCACACATAGTGCATTAGTAAATC
20011592 GCACACATAGTGCATT
1 GCACACATAGTGCATT
20011608 TGAGATAGCC
Statistics
Matches: 78, Mismatches: 7, Indels: 6
0.86 0.08 0.07
Matches are distributed among these distances:
23 2 0.03
24 72 0.92
25 4 0.05
ACGTcount: A:0.35, C:0.23, G:0.16, T:0.26
Consensus pattern (24 bp):
GCACACATAGTGCATTAGTAAATC
Found at i:20013208 original size:39 final size:39
Alignment explanation
Indices: 20013127--20013289 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
20013117 TATGGTAACC
* *
20013127 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
20013167 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
20013206 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
20013245 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
20013284 CGCACA
1 CGCACA
20013290 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:20016268 original size:93 final size:93
Alignment explanation
Indices: 20016109--20016280 Score: 317
Period size: 93 Copynumber: 1.8 Consensus size: 93
20016099 GCCCATAAGT
* *
20016109 GAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20016174 CGAGTTCGGATGCCTAGTTACATCTCAC
66 CGAGTTCGGATGCCTAGTTACATCTCAC
*
20016202 GAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
20016267 CGAGTTCGGATGCC
66 CGAGTTCGGATGCC
20016281 CAAATATCCC
Statistics
Matches: 76, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
93 76 1.00
ACGTcount: A:0.28, C:0.30, G:0.22, T:0.21
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCAA
CGAGTTCGGATGCCTAGTTACATCTCAC
Found at i:20016276 original size:46 final size:46
Alignment explanation
Indices: 20016101--20016276 Score: 225
Period size: 46 Copynumber: 3.8 Consensus size: 46
20016091 TGTAACCCGC
* * *
20016101 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
20016147 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
* *
20016197 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
20016240 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
20016277 TGCCCAAATA
Statistics
Matches: 112, Mismatches: 9, Indels: 18
0.81 0.06 0.13
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 2 0.02
45 2 0.02
46 64 0.57
47 29 0.26
48 2 0.02
49 2 0.02
50 3 0.03
51 2 0.02
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (46 bp):
CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:20023908 original size:39 final size:39
Alignment explanation
Indices: 20023827--20023989 Score: 263
Period size: 39 Copynumber: 4.2 Consensus size: 39
20023817 TATGGTAACC
* *
20023827 CGCACAAATGCCTTCGGGACTTAACCCGGATATCACAACT
1 CGCACAATTGCCTTCGGG-CTTAGCCCGGATATCACAACT
* *
20023867 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCATAGCT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
20023906 CGCACCATTGCCTTCGGGCTTAGCCCGGATATCACAACT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
*
20023945 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAATT
1 CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
20023984 CGCACA
1 CGCACA
20023990 TTCATACACA
Statistics
Matches: 114, Mismatches: 9, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
39 97 0.85
40 17 0.15
ACGTcount: A:0.24, C:0.33, G:0.20, T:0.23
Consensus pattern (39 bp):
CGCACAATTGCCTTCGGGCTTAGCCCGGATATCACAACT
Found at i:20027503 original size:41 final size:41
Alignment explanation
Indices: 20027458--20027575 Score: 98
Period size: 41 Copynumber: 3.1 Consensus size: 41
20027448 TGAAAGATAA
20027458 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
* * * * *
20027499 ATGTAGAC-AAG-AG-A-GC-T-A---C--GTGAAAGATA-A
1 ATGTAG-CTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
20027529 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
1 ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
20027570 ATGTAG
1 ATGTAG
20027576 ACAAGAGAGC
Statistics
Matches: 54, Mismatches: 10, Indels: 26
0.60 0.11 0.29
Matches are distributed among these distances:
29 1 0.02
30 8 0.15
31 9 0.17
32 1 0.02
33 3 0.06
34 1 0.02
35 1 0.02
36 1 0.02
37 1 0.02
38 3 0.06
39 1 0.02
40 9 0.17
41 14 0.26
42 1 0.02
ACGTcount: A:0.32, C:0.18, G:0.29, T:0.21
Consensus pattern (41 bp):
ATGTAGCTAGGTCGCATGCGTGATTCCAAGTGAAGGACACC
Found at i:20027514 original size:71 final size:71
Alignment explanation
Indices: 20027426--20027589 Score: 328
Period size: 71 Copynumber: 2.3 Consensus size: 71
20027416 GAGATGTATC
20027426 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
20027491 AGGACA
66 AGGACA
20027497 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
1 CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
20027562 AGGACA
66 AGGACA
20027568 CCATGTAGACAAGAGAGCTACG
1 CCATGTAGACAAGAGAGCTACG
20027590 AGACAAATCG
Statistics
Matches: 93, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
71 93 1.00
ACGTcount: A:0.35, C:0.18, G:0.28, T:0.19
Consensus pattern (71 bp):
CCATGTAGACAAGAGAGCTACGTGAAAGATAAATGTAGCTAGGTCGCATGCGTGATTCCAAGTGA
AGGACA
Found at i:20031976 original size:89 final size:87
Alignment explanation
Indices: 20031860--20032040 Score: 222
Period size: 89 Copynumber: 2.1 Consensus size: 87
20031850 TTAAGTTCTT
* * * ** ** *
20031860 TTTTTTTTTTGCACTTATTTGGGTACTTGAACCTTCAAAATG-ATCAAAAAGGCCTTC-AAATCT
1 TTTTTCTTTTGCACTCAATTGAATACTTGAACCTTCAAAATGCATCAAAAAAACCCTCAAAAT-T
20031923 TTTCAAAAAAGGCAATTAAGCCCCTA
65 TTTCAAAAAA---AATTAAGCCCCTA
*
20031949 TTTTTCTTTTGCACTCAATTGAATACTTGAACTTTCAAAATGCATCAAAAAAACCCTCAAAATTT
1 TTTTTCTTTTGCACTCAATTGAATACTTGAACCTTCAAAATGCATCAAAAAAACCCTCAAAATTT
20032014 TTCAAAAAAAATTAAGCCCCTA
66 TTCAAAAAAAATTAAGCCCCTA
*
20032036 ATTTT
1 TTTTT
20032041 ATTAAAAATT
Statistics
Matches: 80, Mismatches: 10, Indels: 6
0.83 0.10 0.06
Matches are distributed among these distances:
87 17 0.21
89 36 0.45
90 23 0.29
91 4 0.05
ACGTcount: A:0.36, C:0.19, G:0.09, T:0.36
Consensus pattern (87 bp):
TTTTTCTTTTGCACTCAATTGAATACTTGAACCTTCAAAATGCATCAAAAAAACCCTCAAAATTT
TTCAAAAAAAATTAAGCCCCTA
Found at i:20032059 original size:10 final size:10
Alignment explanation
Indices: 20032039--20032150 Score: 83
Period size: 10 Copynumber: 11.8 Consensus size: 10
20032029 GCCCCTAATT
*
20032039 TTATTAAAAA
1 TTATAAAAAA
*
20032049 TTAGAAAAAA
1 TTATAAAAAA
20032059 TTATAAAAAA
1 TTATAAAAAA
20032069 TTAT-AAAAA
1 TTATAAAAAA
** *
20032078 TCGTACAAAA
1 TTATAAAAAA
20032088 -TATAAAAAA
1 TTATAAAAAA
* **
20032097 TTGTAAAATT
1 TTATAAAAAA
20032107 TTATAAAAAA
1 TTATAAAAAA
*
20032117 -TATAAAATA
1 TTATAAAAAA
*
20032126 -TAT-AGAAA
1 TTATAAAAAA
*
20032134 -TATAAATAA
1 TTATAAAAAA
20032143 TTATAAAA
1 TTATAAAA
20032151 TTTTATAAAC
Statistics
Matches: 77, Mismatches: 21, Indels: 8
0.73 0.20 0.08
Matches are distributed among these distances:
8 6 0.08
9 27 0.35
10 44 0.57
ACGTcount: A:0.63, C:0.02, G:0.04, T:0.31
Consensus pattern (10 bp):
TTATAAAAAA
Found at i:20032129 original size:38 final size:38
Alignment explanation
Indices: 20032045--20032150 Score: 96
Period size: 38 Copynumber: 2.9 Consensus size: 38
20032035 AATTTTATTA
* *
20032045 AAAAT-TAGAAAAAATTATAAAAAATTATAAAAATCGT
1 AAAATATATAAAAAATTATAAAAAATTATAAAAATCAT
* **
20032082 ACAAA-ATATAAAAAATTGTAAAATTTTATAAAAAAT-AT
1 A-AAATATATAAAAAATTATAAAAAATTAT-AAAAATCAT
* *
20032120 AAAATATAT-AGAAA-TATAAATAATTATAAAA
1 AAAATATATAAAAAATTATAAAAAATTATAAAA
20032151 TTTTATAAAC
Statistics
Matches: 55, Mismatches: 10, Indels: 10
0.73 0.13 0.13
Matches are distributed among these distances:
35 4 0.07
36 9 0.16
37 8 0.15
38 28 0.51
39 6 0.11
ACGTcount: A:0.65, C:0.02, G:0.04, T:0.29
Consensus pattern (38 bp):
AAAATATATAAAAAATTATAAAAAATTATAAAAATCAT
Found at i:20032135 original size:46 final size:48
Alignment explanation
Indices: 20032044--20032222 Score: 143
Period size: 48 Copynumber: 3.7 Consensus size: 48
20032034 TAATTTTATT
* ** *
20032044 AAAAATTAGAAAAAATTATAAAAAATTATAAAAATCGTACAAAATATA
1 AAAAATTATAAAATTTTATAAAAAATTATAAAAATCATACAAAATATA
* *
20032092 AAAAATTGTAAAATTTTATAAAAAA-TATAAAATAT-ATA-GAAATATA
1 AAAAATTATAAAATTTTATAAAAAATTATAAAA-ATCATACAAAATATA
* **** * *
20032138 AATAATTATAAAATTTTATAAACTCGTA-AGAAAATTATACAAAATGTA
1 AAAAATTATAAAATTTTATAAAAAATTATA-AAAATCATACAAAATATA
* *
20032186 AAAAA-AATATAAATTTCATAAAAAAAATTATAAAAAT
1 AAAAATTATA-AAATTT--TATAAAAAATTATAAAAAT
20032223 TATCTTACCA
Statistics
Matches: 102, Mismatches: 20, Indels: 16
0.74 0.14 0.12
Matches are distributed among these distances:
46 30 0.29
47 20 0.20
48 39 0.38
50 12 0.12
51 1 0.01
ACGTcount: A:0.63, C:0.03, G:0.04, T:0.30
Consensus pattern (48 bp):
AAAAATTATAAAATTTTATAAAAAATTATAAAAATCATACAAAATATA
Found at i:20032448 original size:27 final size:26
Alignment explanation
Indices: 20032418--20032469 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
20032408 AAAAAAATTC
20032418 TATTTTTAGTAAATTTAAAATTTTTTA
1 TATTTTTA-TAAATTTAAAATTTTTTA
* **
20032445 TATTTTTATTAATTTTTAATTTTTT
1 TATTTTTATAAATTTAAAATTTTTT
20032470 CTAAAATTTA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 14 0.64
27 8 0.36
ACGTcount: A:0.31, C:0.00, G:0.02, T:0.67
Consensus pattern (26 bp):
TATTTTTATAAATTTAAAATTTTTTA
Found at i:20032469 original size:19 final size:19
Alignment explanation
Indices: 20032436--20032508 Score: 51
Period size: 19 Copynumber: 3.7 Consensus size: 19
20032426 GTAAATTTAA
* *
20032436 AATTTTTTATATTTTTATT
1 AATTTTTAATTTTTTTATT
*
20032455 AATTTTTAATTTTTTCTA-A
1 AATTTTTAATTTTTT-TATT
*
20032474 AATTTATT-ATTTTTATAATT
1 AATTT-TTAATTTTT-TTATT
*
20032494 TATTTTCTAATTTTT
1 AATTTT-TAATTTTT
20032509 AATAAAAGCT
Statistics
Matches: 42, Mismatches: 6, Indels: 10
0.72 0.10 0.17
Matches are distributed among these distances:
19 26 0.62
20 10 0.24
21 6 0.14
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (19 bp):
AATTTTTAATTTTTTTATT
Found at i:20032478 original size:38 final size:40
Alignment explanation
Indices: 20032433--20032508 Score: 104
Period size: 38 Copynumber: 1.9 Consensus size: 40
20032423 TTAGTAAATT
*
20032433 TAAAATTTTTTATATTTT-T-ATTAATTTT-TAATTTTTTC
1 TAAAATTTATTAT-TTTTATAATTAATTTTCTAATTTTTTC
*
20032471 TAAAATTTATTATTTTTATAATTTATTTTCTAATTTTT
1 TAAAATTTATTATTTTTATAATTAATTTTCTAATTTTT
20032509 AATAAAAGCT
Statistics
Matches: 33, Mismatches: 2, Indels: 4
0.85 0.05 0.10
Matches are distributed among these distances:
37 4 0.12
38 13 0.39
39 8 0.24
40 8 0.24
ACGTcount: A:0.30, C:0.03, G:0.00, T:0.67
Consensus pattern (40 bp):
TAAAATTTATTATTTTTATAATTAATTTTCTAATTTTTTC
Found at i:20045964 original size:2 final size:2
Alignment explanation
Indices: 20045957--20045992 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
20045947 GATAGTAAGA
20045957 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
20045993 TTCCGTTGGT
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20048555 original size:34 final size:34
Alignment explanation
Indices: 20048517--20048584 Score: 127
Period size: 34 Copynumber: 2.0 Consensus size: 34
20048507 TTTTCATTTG
*
20048517 ACTAAAAAAAGCTATTATCATCATAATTTTTTAT
1 ACTAAAAAAAGCTATTATCATCAGAATTTTTTAT
20048551 ACTAAAAAAAGCTATTATCATCAGAATTTTTTAT
1 ACTAAAAAAAGCTATTATCATCAGAATTTTTTAT
20048585 TCACATACAA
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
34 33 1.00
ACGTcount: A:0.44, C:0.12, G:0.04, T:0.40
Consensus pattern (34 bp):
ACTAAAAAAAGCTATTATCATCAGAATTTTTTAT
Found at i:20049978 original size:46 final size:46
Alignment explanation
Indices: 20049886--20049992 Score: 110
Period size: 46 Copynumber: 2.3 Consensus size: 46
20049876 TGATATGTGT
* * * * *
20049886 GCTAGTGTAAAACATGTCTGGGACATGCATTGGCCACAATATGAGA
1 GCTAATGTAAGACATGTCTGGGACATGCATCGGCCACAAGACGAGA
* *
20049932 GGC-AATGTAAGACATGTTTGGGACATGCATCGG-CATTAAGACGAGA
1 -GCTAATGTAAGACATGTCTGGGACATGCATCGGCCA-CAAGACGAGA
*
20049978 GCTAGTGTAAGACAT
1 GCTAATGTAAGACAT
20049993 CGCTAGGGCG
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
45 4 0.08
46 44 0.88
47 2 0.04
ACGTcount: A:0.33, C:0.16, G:0.28, T:0.23
Consensus pattern (46 bp):
GCTAATGTAAGACATGTCTGGGACATGCATCGGCCACAAGACGAGA
Found at i:20050200 original size:49 final size:49
Alignment explanation
Indices: 20050070--20050202 Score: 162
Period size: 49 Copynumber: 2.7 Consensus size: 49
20050060 CTTGTTGAGT
* * *
20050070 GTCAGTGTAAGACTTGTCTAGGACATGGCATCAACACCGATAGATGAGA
1 GTCAGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAAA
* * * *
20050119 GCCAGTGTAAAACCTGTCTAGGACACT-GCATCGGC-CTCGATATATGAAA
1 GTCAGTGTAAGACCTGTCTAGGACA-TGGCATCGACAC-CGATAGATGAAA
*
20050168 GTCAGTGTAAGACCTGTCTGGGACATGGCATCGAC
1 GTCAGTGTAAGACCTGTCTAGGACATGGCATCGAC
20050203 TTTGATGTGC
Statistics
Matches: 70, Mismatches: 11, Indels: 6
0.80 0.13 0.07
Matches are distributed among these distances:
48 2 0.03
49 67 0.96
50 1 0.01
ACGTcount: A:0.29, C:0.22, G:0.26, T:0.23
Consensus pattern (49 bp):
GTCAGTGTAAGACCTGTCTAGGACATGGCATCGACACCGATAGATGAAA
Found at i:20058005 original size:46 final size:46
Alignment explanation
Indices: 20057872--20058046 Score: 154
Period size: 46 Copynumber: 3.7 Consensus size: 46
20057862 TGATATGTGT
* * * *
20057872 GCTAGTGTAAGACATGTTTGGGACATGCATC-GACTATATTATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTAGA-GATGAGA
* * * * ** *
20057918 GCCAATGTAATACATGTCTGGGACATGCATCGGTATTGAGATGAGA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTAGAGATGAGA
* * * *
20057964 GCTAGTGTAAGACATGTCTGGGGCATGCATCAGCCTCGAGATATACAA
1 GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTAGAGAT-GA-GA
* *
20058012 GCTAGTGTAAGACCTGCCTGGGACATGACATCAGC
1 GCTAGTGTAAGACATGTCTGGGACATG-CATCAGC
20058047 TTGTTGAGTG
Statistics
Matches: 103, Mismatches: 22, Indels: 5
0.79 0.17 0.04
Matches are distributed among these distances:
46 67 0.65
47 4 0.04
48 25 0.24
49 7 0.07
ACGTcount: A:0.29, C:0.18, G:0.27, T:0.25
Consensus pattern (46 bp):
GCTAGTGTAAGACATGTCTGGGACATGCATCAGCCTAGAGATGAGA
Found at i:20060469 original size:27 final size:27
Alignment explanation
Indices: 20060435--20060517 Score: 166
Period size: 27 Copynumber: 3.1 Consensus size: 27
20060425 ATGAAGTAAG
20060435 AAAAATGTATAAATACAGGATCAAAGT
1 AAAAATGTATAAATACAGGATCAAAGT
20060462 AAAAATGTATAAATACAGGATCAAAGT
1 AAAAATGTATAAATACAGGATCAAAGT
20060489 AAAAATGTATAAATACAGGATCAAAGT
1 AAAAATGTATAAATACAGGATCAAAGT
20060516 AA
1 AA
20060518 TACGGTGCCT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 56 1.00
ACGTcount: A:0.57, C:0.07, G:0.14, T:0.22
Consensus pattern (27 bp):
AAAAATGTATAAATACAGGATCAAAGT
Found at i:20065363 original size:2 final size:2
Alignment explanation
Indices: 20065350--20065380 Score: 53
Period size: 2 Copynumber: 15.5 Consensus size: 2
20065340 TGTTGTAATG
*
20065350 TA TA TT 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
20065381 GTATTACTTG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.45, C:0.00, G:0.00, T:0.55
Consensus pattern (2 bp):
TA
Found at i:20069049 original size:13 final size:13
Alignment explanation
Indices: 20069031--20069061 Score: 62
Period size: 13 Copynumber: 2.4 Consensus size: 13
20069021 TAGATAATTA
20069031 ATATTCAAGCATG
1 ATATTCAAGCATG
20069044 ATATTCAAGCATG
1 ATATTCAAGCATG
20069057 ATATT
1 ATATT
20069062 GAATTATTAT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.39, C:0.13, G:0.13, T:0.35
Consensus pattern (13 bp):
ATATTCAAGCATG
Found at i:20075216 original size:48 final size:48
Alignment explanation
Indices: 20075124--20075218 Score: 129
Period size: 48 Copynumber: 2.0 Consensus size: 48
20075114 TCATGTCAGT
* * * *
20075124 GCCGATGCCATGTCCCAGACTTGGTCTTATACTAGCACACATATCATC
1 GCCGATACCATGTCCCAGACATGGTCTTACACTAGCACAAATATCATC
*
20075172 GCCGATACCATGTCCCAGACATGGTCTTACA-TAGGTACAAATATCAT
1 GCCGATACCATGTCCCAGACATGGTCTTACACTA-GCACAAATATCAT
20075219 TAATCACAGT
Statistics
Matches: 41, Mismatches: 5, Indels: 2
0.85 0.10 0.04
Matches are distributed among these distances:
47 2 0.05
48 39 0.95
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.26
Consensus pattern (48 bp):
GCCGATACCATGTCCCAGACATGGTCTTACACTAGCACAAATATCATC
Found at i:20079391 original size:75 final size:75
Alignment explanation
Indices: 20079257--20079537 Score: 364
Period size: 75 Copynumber: 3.7 Consensus size: 75
20079247 GCCGGTTTAT
* * * * * * *
20079257 CCGAGTAGCGCTGGGTGCAATTACCGTTGGTTCATCCAGCTAAAGCTGGGCTCACAATTACTATC
1 CCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATC
*
20079322 GTCAGTATAC
66 GTCGGTATAC
* * * * * *
20079332 TCGACTAGTATTGGGTGCAAACATCGTTTGTTTATCCAACTAGAGCTGGGCTCACAATTACTATT
1 CCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATC
20079397 GTCGGTATAC
66 GTCGGTATAC
* * *
20079407 CCGACTAGCACGGGGTACAAATATCGTTGGTTTATCCAACTAGAGATGGGCTCACAATTACTATC
1 CCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATC
* *
20079472 ATCGGAATAC
66 GTCGGTATAC
* * *
20079482 CCGACTAGCACTAGGTGCAAATATTGTTGGTTTATCCAACTAGAGCTAGGCTCACA
1 CCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACA
20079538 TTTAATACTG
Statistics
Matches: 175, Mismatches: 31, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
75 175 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (75 bp):
CCGACTAGCACTGGGTGCAAATATCGTTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATC
GTCGGTATAC
Found at i:20085961 original size:74 final size:75
Alignment explanation
Indices: 20085875--20086054 Score: 227
Period size: 75 Copynumber: 2.4 Consensus size: 75
20085865 CGTAATTACT
* * * * * **
20085875 ATTGGTTCATCCAATTAGAGTTGGGCTCACAATTACTATCGTCGGT-ATTCCAACTAGAACTGGG
1 ATTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCATCAGTAAACCCAACTAGAACTGGG
20085939 TGCAAACATC
66 TGCAAACATC
* * *
20085949 ATTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTGTCATCAGTAAACCCGACTAGCACTGGG
1 ATTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCATCAGTAAACCCAACTAGAACTGGG
*
20086014 TGCAAATATC
66 TGCAAACATC
* * *
20086024 GTTGGTTTATCCTACTAGAGCTGAGCTCACA
1 ATTGGTTTATCCAACTAGAGCTGGGCTCACA
20086055 TAATACTGTA
Statistics
Matches: 91, Mismatches: 14, Indels: 1
0.86 0.13 0.01
Matches are distributed among these distances:
74 40 0.44
75 51 0.56
ACGTcount: A:0.28, C:0.23, G:0.21, T:0.29
Consensus pattern (75 bp):
ATTGGTTTATCCAACTAGAGCTGGGCTCACAATTACTATCATCAGTAAACCCAACTAGAACTGGG
TGCAAACATC
Found at i:20092398 original size:72 final size:72
Alignment explanation
Indices: 20092255--20092439 Score: 255
Period size: 72 Copynumber: 2.6 Consensus size: 72
20092245 TATGTAATAT
* * * ** *
20092255 GGGTTCGGGTACTGACTTTGTGTATAAACCTGTGAGTAACTCGCTAAGCGAGCATATCATGTTAA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATAAGCGAGCATATCATGATAA
*
20092320 TGCTTTG
66 TACTTTG
* *
20092327 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATGAGCGGGCATTAT-ATGATA
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATAAGCGAGCA-TATCATGATA
20092391 ATACTTTG
65 ATACTTTG
* *
20092399 GGGTCCGGGTGCTGACTTTGTGTACAAACCCGTGAGTAGCT
1 GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCT
20092440 TAAATGCGGG
Statistics
Matches: 101, Mismatches: 11, Indels: 2
0.89 0.10 0.02
Matches are distributed among these distances:
72 98 0.97
73 3 0.03
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.31
Consensus pattern (72 bp):
GGGTCCGGGTACTGACTTTGTGTATAAACCCGTGAGTAGCTCAATAAGCGAGCATATCATGATAA
TACTTTG
Found at i:20092978 original size:128 final size:128
Alignment explanation
Indices: 20092750--20093005 Score: 512
Period size: 128 Copynumber: 2.0 Consensus size: 128
20092740 GGACTATGAT
20092750 ATATGTTTATAAATGCATAGATTTCTAATTTAAAAGAAATGAAGGTGTGATGAACTTAGTTATCA
1 ATATGTTTATAAATGCATAGATTTCTAATTTAAAAGAAATGAAGGTGTGATGAACTTAGTTATCA
20092815 TCATTTTTGTACTAAAACTGTTTTGGATAGTAGCTGTAGTCAAAATTTGAAAATTCACCAAAA
66 TCATTTTTGTACTAAAACTGTTTTGGATAGTAGCTGTAGTCAAAATTTGAAAATTCACCAAAA
20092878 ATATGTTTATAAATGCATAGATTTCTAATTTAAAAGAAATGAAGGTGTGATGAACTTAGTTATCA
1 ATATGTTTATAAATGCATAGATTTCTAATTTAAAAGAAATGAAGGTGTGATGAACTTAGTTATCA
20092943 TCATTTTTGTACTAAAACTGTTTTGGATAGTAGCTGTAGTCAAAATTTGAAAATTCACCAAAA
66 TCATTTTTGTACTAAAACTGTTTTGGATAGTAGCTGTAGTCAAAATTTGAAAATTCACCAAAA
20093006 TAGTGGAAAT
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
128 128 1.00
ACGTcount: A:0.38, C:0.09, G:0.16, T:0.37
Consensus pattern (128 bp):
ATATGTTTATAAATGCATAGATTTCTAATTTAAAAGAAATGAAGGTGTGATGAACTTAGTTATCA
TCATTTTTGTACTAAAACTGTTTTGGATAGTAGCTGTAGTCAAAATTTGAAAATTCACCAAAA
Found at i:20097113 original size:43 final size:43
Alignment explanation
Indices: 20097052--20097137 Score: 145
Period size: 43 Copynumber: 2.0 Consensus size: 43
20097042 TATGTGATTG
*
20097052 ATATTGAAATGGCAAATATGATAAATGAATATAAGATGAGAAA
1 ATATTGAAATGGAAAATATGATAAATGAATATAAGATGAGAAA
* *
20097095 ATATTGAAATGGAAAATATGATAAATGATTATGAGATGAGAAA
1 ATATTGAAATGGAAAATATGATAAATGAATATAAGATGAGAAA
20097138 TGAGATATGA
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
43 40 1.00
ACGTcount: A:0.52, C:0.01, G:0.20, T:0.27
Consensus pattern (43 bp):
ATATTGAAATGGAAAATATGATAAATGAATATAAGATGAGAAA
Found at i:20101950 original size:34 final size:33
Alignment explanation
Indices: 20101886--20101973 Score: 86
Period size: 33 Copynumber: 2.5 Consensus size: 33
20101876 AGAAAGAGTG
* * *
20101886 TTTATAATTTTCATATTCTTGTTACTTTTTTAT
1 TTTATAATTTTAATATTCTTATAACTTTTTTAT
20101919 TTTATAATTTTAATAGTTCTTATAATCTTTTTATAAT
1 TTTATAATTTTAATA-TTCTTATAA-CTTTTT-T-AT
* *
20101956 TTAATATTTTTTAATATT
1 TTTATA-ATTTTAATATT
20101974 TAGATTTTTA
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
33 14 0.31
34 7 0.16
35 6 0.13
36 1 0.02
37 9 0.20
38 8 0.18
ACGTcount: A:0.28, C:0.06, G:0.02, T:0.64
Consensus pattern (33 bp):
TTTATAATTTTAATATTCTTATAACTTTTTTAT
Found at i:20108570 original size:3 final size:3
Alignment explanation
Indices: 20108564--20108590 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
20108554 AGGTGTGTTG
20108564 TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA
20108591 CTTTAGTCCT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
TTA
Found at i:20122611 original size:3 final size:3
Alignment explanation
Indices: 20122603--20122676 Score: 148
Period size: 3 Copynumber: 24.7 Consensus size: 3
20122593 GAATGTATGA
20122603 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
20122651 ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT AT
20122677 GTTATAAAGT
Statistics
Matches: 71, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 71 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:20125687 original size:27 final size:27
Alignment explanation
Indices: 20125657--20125736 Score: 83
Period size: 27 Copynumber: 3.0 Consensus size: 27
20125647 AGTTCATCAG
20125657 GATAGTAAACACGAGGTAGTCCACCGA
1 GATAGTAAACACGAGGTAGTCCACCGA
* * *
20125684 GATAGTAGAA-ACGGGGTAG-CCTGCCAA
1 GATAGTA-AACACGAGGTAGTCC-ACCGA
* *
20125711 GACAATAAACACGAGGTAGTCCACCG
1 GATAGTAAACACGAGGTAGTCCACCG
20125737 GGATTGACAA
Statistics
Matches: 41, Mismatches: 8, Indels: 8
0.72 0.14 0.14
Matches are distributed among these distances:
26 4 0.10
27 33 0.80
28 4 0.10
ACGTcount: A:0.36, C:0.23, G:0.28, T:0.14
Consensus pattern (27 bp):
GATAGTAAACACGAGGTAGTCCACCGA
Found at i:20130931 original size:29 final size:29
Alignment explanation
Indices: 20130897--20131057 Score: 207
Period size: 29 Copynumber: 5.6 Consensus size: 29
20130887 TACTCGATTT
** * *
20130897 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
20130926 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
20130955 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
20130984 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
20131013 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
20131042 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
20131058 ATCTCGTCAC
Statistics
Matches: 116, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
28 2 0.02
29 114 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.25
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:20139031 original size:29 final size:29
Alignment explanation
Indices: 20138997--20139157 Score: 198
Period size: 29 Copynumber: 5.6 Consensus size: 29
20138987 TACTCGATTT
** * *
20138997 CGCACACTTAGTGCCATGCGATTT-AAGCC
1 CGCACACTTAGTGCCAT-ATATTTCCAGCA
* *** * *
20139026 CGCACACATAGTGCCATACCCTTCGAGCT
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
20139055 CGCACACTTAGTGCCATATATTTCTAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
*
20139084 TGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
20139113 CGCACACTTAGTGCCATATATTTCCAGCA
1 CGCACACTTAGTGCCATATATTTCCAGCA
20139142 CGCACACTTAGTGCCA
1 CGCACACTTAGTGCCA
20139158 ATCTCGTCAC
Statistics
Matches: 115, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
28 2 0.02
29 113 0.98
ACGTcount: A:0.26, C:0.32, G:0.16, T:0.26
Consensus pattern (29 bp):
CGCACACTTAGTGCCATATATTTCCAGCA
Found at i:20141959 original size:20 final size:19
Alignment explanation
Indices: 20141917--20141959 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
20141907 AATCGATTCT
* *
20141917 TTTTGTCAAGATTGGTACT
1 TTTTGTCAAGATTGATACA
*
20141936 TTTTGTCAAGTATTGATAGA
1 TTTTGTCAAG-ATTGATACA
20141956 TTTT
1 TTTT
20141960 ATTGAGTACC
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
19 10 0.50
20 10 0.50
ACGTcount: A:0.23, C:0.07, G:0.19, T:0.51
Consensus pattern (19 bp):
TTTTGTCAAGATTGATACA
Found at i:20146371 original size:5 final size:5
Alignment explanation
Indices: 20146361--20146392 Score: 50
Period size: 5 Copynumber: 6.8 Consensus size: 5
20146351 TTACTAAAAC
20146361 ATAAT AT-A- ATAAT ATAAT ATAAT ATAAT ATAA
1 ATAAT ATAAT ATAAT ATAAT ATAAT ATAAT ATAA
20146393 CAGTTAAAAT
Statistics
Matches: 25, Mismatches: 0, Indels: 4
0.86 0.00 0.14
Matches are distributed among these distances:
3 2 0.08
4 2 0.08
5 21 0.84
ACGTcount: A:0.62, C:0.00, G:0.00, T:0.38
Consensus pattern (5 bp):
ATAAT
Found at i:20146379 original size:13 final size:13
Alignment explanation
Indices: 20146338--20146384 Score: 51
Period size: 13 Copynumber: 3.5 Consensus size: 13
20146328 ATTTAAGTAA
20146338 ATAATAATAATAATT
1 ATAATAAT-ATAA-T
*
20146353 ACTAA-AACATAAT
1 A-TAATAATATAAT
20146366 ATAATAATATAAT
1 ATAATAATATAAT
20146379 ATAATA
1 ATAATA
20146385 TAATATAACA
Statistics
Matches: 28, Mismatches: 2, Indels: 6
0.78 0.06 0.17
Matches are distributed among these distances:
12 3 0.11
13 15 0.54
14 4 0.14
15 3 0.11
16 3 0.11
ACGTcount: A:0.62, C:0.04, G:0.00, T:0.34
Consensus pattern (13 bp):
ATAATAATATAAT
Found at i:20150544 original size:45 final size:47
Alignment explanation
Indices: 20150392--20150715 Score: 240
Period size: 50 Copynumber: 6.7 Consensus size: 47
20150382 TGAGAGCTAG
* * * *** * *
20150392 TGTAAGACCATATTTGGGGCATGACATCGGTACCGATATATGAGAGCCAG
1 TGTAAGACCATGTTTGGGACATGGCATC-G-ACCTCGATAT-AGAGTCAA
* * *
20150442 TGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATACGAGAGTCAG
1 TGTAAGACCATGTTTGGGACATGGCATCGACCTCGATAT---AGAGTCAA
* *
20150492 TGTAAGACCATGTTTGGGACATGGCATTGACCT-GATAT-GTGTCAA
1 TGTAAGACCATGTTTGGGACATGGCATCGACCTCGATATAGAGTCAA
* * * * *
20150537 TGTAAGACCATGTTTGGGACATGGCATCAACATCAATAGATGAGAGCCAG
1 TGTAAGACCATGTTTGGGACATGGCATCGACCTCGAT--AT-AGAGTCAA
* *
20150587 TGTAAGACCATGTCTGGAACATGGCATC-AGCCTCGATATACGAGATTCAA
1 TGTAAGACCATGTTTGGGACATGGCATCGA-CCTCGATATA-GAG--TCAA
* * * * * *
20150637 TGTAAGACCATGTCTGGGACATGGCATCGACTTCGATGTGTGAGCCAG
1 TGTAAGACCATGTTTGGGACATGGCATCGACCTCGATAT-AGAGTCAA
** *
20150685 TGTAAGACCATGTCCGGGACATGGCGTCGAC
1 TGTAAGACCATGTTTGGGACATGGCATCGAC
20150716 ACTTTACCCT
Statistics
Matches: 226, Mismatches: 35, Indels: 28
0.78 0.12 0.10
Matches are distributed among these distances:
45 35 0.15
46 2 0.01
47 1 0.00
48 44 0.19
49 7 0.03
50 136 0.60
51 1 0.00
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (47 bp):
TGTAAGACCATGTTTGGGACATGGCATCGACCTCGATATAGAGTCAA
Found at i:20150562 original size:95 final size:97
Alignment explanation
Indices: 20150376--20150709 Score: 329
Period size: 100 Copynumber: 3.4 Consensus size: 97
20150366 TGATGCTAGG
* * * * * * * *
20150376 GATATATGAGAGCTAGTGTAAGACCATATTTGGGGCATGACATCGGTAC-CGATATATGAGAGCC
1 GATATA-GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CCTCGATATA-GAGA-TC
* * *
20150440 AGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
62 AATGTAAGACCATGTCTGGGACATGGCATCGACATC
* * * *
20150476 GATATACGAGAGTCAGTGTAAGACCATGTTTGGGACATGGCAT-TGACCT-GATAT-GTG-TCAA
1 GATATA-GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAG-CCTCGATATAGAGATCAA
* *
20150537 TGTAAGACCATGTTTGGGACATGGCATCAACATC
64 TGTAAGACCATGTCTGGGACATGGCATCGACATC
* * *
20150571 AATAGATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCGATATACGAGATTCA
1 GATATA-GAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATA-GAGA-TCA
*
20150636 ATGTAAGACCATGTCTGGGACATGGCATCGACTTC
63 ATGTAAGACCATGTCTGGGACATGGCATCGACATC
* * *
20150671 GATGT-GTGAGCCAGTGTAAGACCATGTCCGGGACATGGC
1 GATATAGAGAGCCAGTGTAAGACCATGTCTGGGACATGGC
20150710 GTCGACACTT
Statistics
Matches: 194, Mismatches: 33, Indels: 16
0.80 0.14 0.07
Matches are distributed among these distances:
95 72 0.37
96 6 0.03
97 2 0.01
98 33 0.17
99 7 0.04
100 74 0.38
ACGTcount: A:0.29, C:0.19, G:0.28, T:0.24
Consensus pattern (97 bp):
GATATAGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTCGATATAGAGATCAATG
TAAGACCATGTCTGGGACATGGCATCGACATC
Found at i:20150655 original size:145 final size:147
Alignment explanation
Indices: 20150431--20150709 Score: 427
Period size: 145 Copynumber: 1.9 Consensus size: 147
20150421 GTACCGATAT
* * *
20150431 ATGAGAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTCGATATACGAGAGTCAGTGTA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCGATATACGAGAGTCAATGTA
* * * **
20150496 AGACCATGTTTGGGACATGGCATTGACCT-GATATGT-GTCAATGTAAGACCATGTTTGGGACAT
66 AGACCATGTCTGGGACATGGCATCGACCTCGATATGTAGCCAATGTAAGACCATGTCCGGGACAT
20150559 GGCATCAACATCAATAG
131 GGCATCAACATCAATAG
*
20150576 ATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCGATATACGAGATTCAATGTA
1 ATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCGATATACGAGAGTCAATGTA
* * *
20150641 AGACCATGTCTGGGACATGGCATCGACTTCGATGTGTGAGCCAGTGTAAGACCATGTCCGGGACA
66 AGACCATGTCTGGGACATGGCATCGACCTCGATATGT-AGCCAATGTAAGACCATGTCCGGGACA
20150706 TGGC
130 TGGC
20150710 GTCGACACTT
Statistics
Matches: 119, Mismatches: 12, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
145 87 0.73
146 6 0.05
148 26 0.22
ACGTcount: A:0.28, C:0.20, G:0.28, T:0.24
Consensus pattern (147 bp):
ATGAGAGCCAGTGTAAGACCATGTCTGGAACATGGCATCAGCCTCGATATACGAGAGTCAATGTA
AGACCATGTCTGGGACATGGCATCGACCTCGATATGTAGCCAATGTAAGACCATGTCCGGGACAT
GGCATCAACATCAATAG
Found at i:20151995 original size:2 final size:2
Alignment explanation
Indices: 20151988--20152021 Score: 68
Period size: 2 Copynumber: 17.0 Consensus size: 2
20151978 TGGAATATTG
20151988 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
20152022 GTGAAGTGCC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20156397 original size:15 final size:16
Alignment explanation
Indices: 20156371--20156402 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
20156361 TTTTGTGAAA
20156371 GTCTAGGGGGCAAAAT
1 GTCTAGGGGGCAAAAT
20156387 GTCTA-GGGGCAAAAT
1 GTCTAGGGGGCAAAAT
20156402 G
1 G
20156403 GTCATTTTGC
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 11 0.69
16 5 0.31
ACGTcount: A:0.31, C:0.12, G:0.38, T:0.19
Consensus pattern (16 bp):
GTCTAGGGGGCAAAAT
Found at i:20157107 original size:50 final size:50
Alignment explanation
Indices: 20156913--20157106 Score: 298
Period size: 50 Copynumber: 3.9 Consensus size: 50
20156903 TGATGCTAGG
20156913 GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
1 GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
* * *
20156963 GAGATATGAGAGCTAGTGTAAGACCATGTCTGGGACATTGCATCAGCATC
1 GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
* * * *
20157013 GATAGATGAAAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGGCCTC
1 GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
* * *
20157063 GATATATGAGAGTTAGTGTAAGACCATGTCTGGGATATAGCATC
1 GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATC
20157107 GACTTTGATG
Statistics
Matches: 128, Mismatches: 16, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 128 1.00
ACGTcount: A:0.29, C:0.18, G:0.28, T:0.24
Consensus pattern (50 bp):
GATATATGAGAGCTAGTGTAAGACCATGTCTGGGACATGGCATCAGCCTC
Found at i:20161460 original size:18 final size:18
Alignment explanation
Indices: 20161437--20161472 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
20161427 AGACCGAAGA
20161437 TCACTCTTGCATCATCAT
1 TCACTCTTGCATCATCAT
20161455 TCACTCTTGCATCATCAT
1 TCACTCTTGCATCATCAT
20161473 CTTTGTCGTT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.22, C:0.33, G:0.06, T:0.39
Consensus pattern (18 bp):
TCACTCTTGCATCATCAT
Found at i:20162980 original size:40 final size:40
Alignment explanation
Indices: 20162920--20163000 Score: 153
Period size: 40 Copynumber: 2.0 Consensus size: 40
20162910 AAATCTAGAC
20162920 AATGAGTCGGATAAAAAAATATTAAAGAAGCAAAGTTGAT
1 AATGAGTCGGATAAAAAAATATTAAAGAAGCAAAGTTGAT
*
20162960 AATGAGTCGGATAAAGAAATATTAAAGAAGCAAAGTTGAT
1 AATGAGTCGGATAAAAAAATATTAAAGAAGCAAAGTTGAT
20163000 A
1 A
20163001 TTTGAGAAGG
Statistics
Matches: 40, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.52, C:0.05, G:0.21, T:0.22
Consensus pattern (40 bp):
AATGAGTCGGATAAAAAAATATTAAAGAAGCAAAGTTGAT
Found at i:20163335 original size:10 final size:10
Alignment explanation
Indices: 20163320--20163353 Score: 59
Period size: 10 Copynumber: 3.4 Consensus size: 10
20163310 ATGAAAGGAC
20163320 ATTTTGACGA
1 ATTTTGACGA
20163330 ATTTTGACGA
1 ATTTTGACGA
*
20163340 ATTTTGACAA
1 ATTTTGACGA
20163350 ATTT
1 ATTT
20163354 ATGATTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
10 23 1.00
ACGTcount: A:0.32, C:0.09, G:0.15, T:0.44
Consensus pattern (10 bp):
ATTTTGACGA
Found at i:20166447 original size:14 final size:14
Alignment explanation
Indices: 20166428--20166454 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
20166418 ACCCCAATAA
20166428 CAGATACAGATATT
1 CAGATACAGATATT
20166442 CAGATACAGATAT
1 CAGATACAGATAT
20166455 AATAAATTAA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.44, C:0.15, G:0.15, T:0.26
Consensus pattern (14 bp):
CAGATACAGATATT
Found at i:20166773 original size:32 final size:33
Alignment explanation
Indices: 20166695--20166773 Score: 81
Period size: 32 Copynumber: 2.5 Consensus size: 33
20166685 GCCCACATGT
* * *
20166695 CCGTGTGGCCCACA-AGCCCAATTTGGCCTTAC
1 CCGTGTGGCCTACACAGCCCAACTTGGCCTAAC
** *
20166727 CCGTGTAACGTACACA-CCCAACTTGGCCTAAC
1 CCGTGTGGCCTACACAGCCCAACTTGGCCTAAC
*
20166759 TCGTGTGGCCTACAC
1 CCGTGTGGCCTACAC
20166774 GGCCATACTC
Statistics
Matches: 36, Mismatches: 10, Indels: 2
0.75 0.21 0.04
Matches are distributed among these distances:
32 35 0.97
33 1 0.03
ACGTcount: A:0.22, C:0.37, G:0.20, T:0.22
Consensus pattern (33 bp):
CCGTGTGGCCTACACAGCCCAACTTGGCCTAAC
Found at i:20168568 original size:14 final size:14
Alignment explanation
Indices: 20168549--20168578 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
20168539 CCAAGTACTA
20168549 TAAAACAGAAGAAG
1 TAAAACAGAAGAAG
*
20168563 TAAAACAGAATAAG
1 TAAAACAGAAGAAG
20168577 TA
1 TA
20168579 TATTATGTTT
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:0.63, C:0.07, G:0.17, T:0.13
Consensus pattern (14 bp):
TAAAACAGAAGAAG
Found at i:20171317 original size:40 final size:40
Alignment explanation
Indices: 20171272--20171429 Score: 225
Period size: 40 Copynumber: 4.0 Consensus size: 40
20171262 TTATTTGATG
20171272 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
20171312 TGGAATTGTATCCGAGCTTAAAGACTCGTAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
20171352 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
* * *
20171392 TGGAA-TGACATCCGGG-TTAAAAACCTGCAGG-TT-GTGC
1 TGGAATTG-TATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
20171429 T
1 T
20171430 AGATATGTGT
Statistics
Matches: 108, Mismatches: 9, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
37 5 0.05
38 2 0.02
39 15 0.14
40 86 0.80
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTGC
Found at i:20174599 original size:42 final size:42
Alignment explanation
Indices: 20174540--20174645 Score: 203
Period size: 42 Copynumber: 2.5 Consensus size: 42
20174530 CATTTAAGCC
20174540 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
20174582 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
1 TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
20174624 TCTTAGTTTAATTAAATGAGTT
1 TCTTAGTTTAA-TAAATGAGTT
20174646 TATTTAATGA
Statistics
Matches: 63, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
42 53 0.84
43 10 0.16
ACGTcount: A:0.33, C:0.12, G:0.14, T:0.41
Consensus pattern (42 bp):
TCTTAGTTTAATAAATGAGTTGCTGGTCATTAATACAACTCA
Found at i:20174647 original size:14 final size:14
Alignment explanation
Indices: 20174628--20174672 Score: 65
Period size: 14 Copynumber: 3.3 Consensus size: 14
20174618 AACTCATCTT
*
20174628 AGTTTAATTAAATG
1 AGTTTAATTTAATG
20174642 AGTTT-ATTTAATG
1 AGTTTAATTTAATG
*
20174655 AATTTAATTTAATG
1 AGTTTAATTTAATG
20174669 AGTT
1 AGTT
20174673 GCTTCTTTAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
13 11 0.41
14 16 0.59
ACGTcount: A:0.38, C:0.00, G:0.13, T:0.49
Consensus pattern (14 bp):
AGTTTAATTTAATG
Found at i:20180969 original size:40 final size:40
Alignment explanation
Indices: 20180925--20181077 Score: 247
Period size: 40 Copynumber: 3.9 Consensus size: 40
20180915 TTATTTGATG
20180925 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
20180965 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
* *
20181005 TGGAATTGTATCCGGGCTTAAAGACCCGCAGGCTTCGTAC
1 TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
* *
20181045 TGGAA-TGACATCCGGG-TTAAAAACCTGCAGGCT
1 TGGAATTG-TATCCGGGCTTAAAGACCTGCAGGCT
20181078 GTGCTAGATA
Statistics
Matches: 107, Mismatches: 5, Indels: 3
0.93 0.04 0.03
Matches are distributed among these distances:
39 17 0.16
40 90 0.84
ACGTcount: A:0.23, C:0.23, G:0.29, T:0.25
Consensus pattern (40 bp):
TGGAATTGTATCCGGGCTTAAAGACCTGCAGGCTTCGTGC
Found at i:20186567 original size:43 final size:43
Alignment explanation
Indices: 20186519--20186833 Score: 386
Period size: 43 Copynumber: 7.3 Consensus size: 43
20186509 TTATTTAAAA
* *
20186519 AAACGCCGCTAAAGATCATGACCTCTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
*
20186562 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGC-TTTTCCTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTC-AC
20186605 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
* * * **
20186648 AAATGCCGCTAAAGACCATGGCCTTTAGCGGAGCTTTTCCCGA-
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTC-AC
* * *
20186691 AAACTCCGCTAAAGACCATGACCTTTAGCGGCACTTTTTCCAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
* * * *
20186734 AAACGCCGCTAAAAACTATGACCTTTAGCGACGCTTTTTTTAC
1 AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
* * * * * *
20186777 AAACGCCACTATAGA--ATAAACCTTTAACGGCGCTTTTCTGAC
1 AAACGCCGCTAAAGACCAT-GACCTTTAGCGGCGCTTTTTTCAC
20186819 AAACGCCGCTAAAGA
1 AAACGCCGCTAAAGA
20186834 ATATAACCTT
Statistics
Matches: 235, Mismatches: 32, Indels: 11
0.85 0.12 0.04
Matches are distributed among these distances:
41 2 0.01
42 38 0.16
43 189 0.80
44 6 0.03
ACGTcount: A:0.29, C:0.29, G:0.17, T:0.25
Consensus pattern (43 bp):
AAACGCCGCTAAAGACCATGACCTTTAGCGGCGCTTTTTTCAC
Found at i:20186899 original size:20 final size:20
Alignment explanation
Indices: 20186843--20186880 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
20186833 AATATAACCT
*
20186843 TTAAA-AATATATATTTTTA
1 TTAAATAATATTTATTTTTA
20186862 TTAAATAATATTTATTTTT
1 TTAAATAATATTTATTTTT
20186881 TATATTATAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 5 0.29
20 12 0.71
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (20 bp):
TTAAATAATATTTATTTTTA
Found at i:20188865 original size:18 final size:18
Alignment explanation
Indices: 20188842--20188877 Score: 63
Period size: 18 Copynumber: 2.0 Consensus size: 18
20188832 ACCTAAGAAA
20188842 AATAGCAAATAATTTATT
1 AATAGCAAATAATTTATT
*
20188860 AATAGCAAATCATTTATT
1 AATAGCAAATAATTTATT
20188878 TACTTAAACA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.47, C:0.08, G:0.06, T:0.39
Consensus pattern (18 bp):
AATAGCAAATAATTTATT
Found at i:20189987 original size:13 final size:13
Alignment explanation
Indices: 20189967--20190004 Score: 51
Period size: 13 Copynumber: 2.9 Consensus size: 13
20189957 CATTAATCTC
20189967 TATTTTATATTTTA
1 TATTTTAT-TTTTA
*
20189981 T-TTTTATTTTTG
1 TATTTTATTTTTA
20189993 TATTTTATTTTT
1 TATTTTATTTTT
20190005 TTTTGTTATC
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
12 5 0.23
13 16 0.73
14 1 0.05
ACGTcount: A:0.18, C:0.00, G:0.03, T:0.79
Consensus pattern (13 bp):
TATTTTATTTTTA
Found at i:20189996 original size:19 final size:18
Alignment explanation
Indices: 20189969--20190008 Score: 62
Period size: 19 Copynumber: 2.2 Consensus size: 18
20189959 TTAATCTCTA
20189969 TTTTATATTTTATTTTTAT
1 TTTTATATTTTATTTTT-T
*
20189988 TTTTGTATTTTATTTTTT
1 TTTTATATTTTATTTTTT
20190006 TTT
1 TTT
20190009 GTTATCAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
18 4 0.20
19 16 0.80
ACGTcount: A:0.15, C:0.00, G:0.03, T:0.82
Consensus pattern (18 bp):
TTTTATATTTTATTTTTT
Found at i:20190023 original size:20 final size:19
Alignment explanation
Indices: 20189998--20190045 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 19
20189988 TTTTGTATTT
20189998 TATTTTTTTT-TGTTATCAA
1 TATTTTTTTTAT-TTATCAA
20190017 TATTTTTATTTATTTATCAA
1 TATTTTT-TTTATTTATCAA
20190037 TATTTTTTT
1 TATTTTTTT
20190046 AAATCTAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 9 0.33
20 17 0.63
21 1 0.04
ACGTcount: A:0.23, C:0.04, G:0.02, T:0.71
Consensus pattern (19 bp):
TATTTTTTTTATTTATCAA
Found at i:20190320 original size:13 final size:13
Alignment explanation
Indices: 20190302--20190352 Score: 50
Period size: 13 Copynumber: 3.8 Consensus size: 13
20190292 TTTCCAACAG
20190302 TAAACCCTAAACT
1 TAAACCCTAAACT
*
20190315 TAAACCCCAAACT
1 TAAACCCTAAACT
* *
20190328 ATAAA-CCTATATCC
1 -TAAACCCTA-AACT
20190342 TAAACCCTAAA
1 TAAACCCTAAA
20190353 TATATATATT
Statistics
Matches: 30, Mismatches: 5, Indels: 6
0.73 0.12 0.15
Matches are distributed among these distances:
13 20 0.67
14 10 0.33
ACGTcount: A:0.47, C:0.31, G:0.00, T:0.22
Consensus pattern (13 bp):
TAAACCCTAAACT
Found at i:20191121 original size:41 final size:41
Alignment explanation
Indices: 20191076--20191166 Score: 164
Period size: 41 Copynumber: 2.2 Consensus size: 41
20191066 TACTTTTTTT
*
20191076 GCGGCGTTTTTCCAAAAGCGCCGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCAGCTAAAACCTCGACCTATA
*
20191117 GCGGCGTTTTTCTAAAAGCGCAGCTAAAACCTCGACCTATA
1 GCGGCGTTTTTCCAAAAGCGCAGCTAAAACCTCGACCTATA
20191158 GCGGCGTTT
1 GCGGCGTTT
20191167 GGGCCAAAAA
Statistics
Matches: 48, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
41 48 1.00
ACGTcount: A:0.25, C:0.29, G:0.22, T:0.24
Consensus pattern (41 bp):
GCGGCGTTTTTCCAAAAGCGCAGCTAAAACCTCGACCTATA
Found at i:20191205 original size:41 final size:41
Alignment explanation
Indices: 20191156--20191248 Score: 107
Period size: 41 Copynumber: 2.3 Consensus size: 41
20191146 CCTCGACCTA
* *
20191156 TAGCGGCGTTTGGGCCAAAAATGCCGCTATTGCTC-AGTTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCGA-TTTT
* ** *
20191197 TAGTGGCGTTTTTATCAAAAACGCCGCTATTGCTCGATTTT
1 TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCGATTTT
*
20191238 TTGCGGCGTTT
1 TAGCGGCGTTT
20191249 TATTGCAAAC
Statistics
Matches: 43, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
41 42 0.98
42 1 0.02
ACGTcount: A:0.18, C:0.20, G:0.25, T:0.37
Consensus pattern (41 bp):
TAGCGGCGTTTGGACCAAAAACGCCGCTATTGCTCGATTTT
Found at i:20191265 original size:40 final size:41
Alignment explanation
Indices: 20191171--20191249 Score: 115
Period size: 41 Copynumber: 1.9 Consensus size: 41
20191161 GCGTTTGGGC
* *
20191171 CAAAAATGCCGCTATTGCTCAGTTTTTAGTGGCGTTTTTAT
1 CAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTTTTAT
*
20191212 CAAAAACGCCGCTATTGCTC-GATTTTTTGCGGCGTTTT
1 CAAAAACGCCGCTATTGCTCAG-TTTTTAGCGGCGTTTT
20191250 ATTGCAAACG
Statistics
Matches: 34, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
40 1 0.03
41 33 0.97
ACGTcount: A:0.20, C:0.20, G:0.20, T:0.39
Consensus pattern (41 bp):
CAAAAACGCCGCTATTGCTCAGTTTTTAGCGGCGTTTTTAT
Found at i:20194993 original size:23 final size:23
Alignment explanation
Indices: 20194943--20195015 Score: 67
Period size: 25 Copynumber: 3.0 Consensus size: 23
20194933 CGGATAGCCG
* **
20194943 TATATCAGGAAGTTCAAGCGAGC
1 TATATCAGGAAGCTCAAAAGAGC
20194966 TATATCAGGAAGCTCATAAAGAGC
1 TATATCAGGAAGCTCA-AAAGAGC
*
20194990 ATATATC-GAGATGCTCATAAAGAGC
1 -TATATCAG-GAAGCTCA-AAAGAGC
20195015 T
1 T
20195016 GCGGTATGTC
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
23 15 0.35
24 7 0.16
25 21 0.49
ACGTcount: A:0.38, C:0.16, G:0.22, T:0.23
Consensus pattern (23 bp):
TATATCAGGAAGCTCAAAAGAGC
Found at i:20206112 original size:61 final size:60
Alignment explanation
Indices: 20205977--20206155 Score: 189
Period size: 61 Copynumber: 3.0 Consensus size: 60
20205967 GGCTTACATT
* * * *
20205977 TCTAGAGTTTTGCCACAAAGGC-ATCCTTTACATCCAATACTCACCATAGAGGATTTCATG
1 TCTAGAG-TTTGCCACAAAGGCTATCCTTTACATTCAATACTCGCCACAAAGGATTTCATG
* * * * *
20206037 TCCAGAGTTGTGCCACAAAGGCTATCCTTTACTTTCAATACTCGCTACAAAGGTTTTCTTG
1 TCTAGAGTT-TGCCACAAAGGCTATCCTTTACATTCAATACTCGCCACAAAGGATTTCATG
* * * * * *
20206098 TCTAGAGATTTGCCACAAGGGCTGTCATTTACATTCAGTACTTGCCACAAAGGCTTTC
1 TCTAGAG-TTTGCCACAAAGGCTATCCTTTACATTCAATACTCGCCACAAAGGATTTC
20206156 CTTTGACCAA
Statistics
Matches: 98, Mismatches: 18, Indels: 5
0.81 0.15 0.04
Matches are distributed among these distances:
59 2 0.02
60 18 0.18
61 76 0.78
62 2 0.02
ACGTcount: A:0.27, C:0.25, G:0.17, T:0.32
Consensus pattern (60 bp):
TCTAGAGTTTGCCACAAAGGCTATCCTTTACATTCAATACTCGCCACAAAGGATTTCATG
Found at i:20209216 original size:2 final size:2
Alignment explanation
Indices: 20209205--20209250 Score: 85
Period size: 2 Copynumber: 23.5 Consensus size: 2
20209195 TTTCTTAGAA
20209205 AT AT -T 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
20209246 AT AT A
1 AT AT A
20209251 CCAATAATCT
Statistics
Matches: 43, Mismatches: 0, Indels: 2
0.96 0.00 0.04
Matches are distributed among these distances:
1 1 0.02
2 42 0.98
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:20222272 original size:31 final size:31
Alignment explanation
Indices: 20222236--20222309 Score: 103
Period size: 31 Copynumber: 2.4 Consensus size: 31
20222226 GGATAATTTC
* * * * *
20222236 TTAACCACCCACATCCTACTAAGTCTCATAA
1 TTAACCACCCACACCCCACTAAATCCCACAA
20222267 TTAACCACCCACACCCCACTAAATCCCACAA
1 TTAACCACCCACACCCCACTAAATCCCACAA
20222298 TTAACCACCCAC
1 TTAACCACCCAC
20222310 CAGATTCCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.36, C:0.43, G:0.01, T:0.19
Consensus pattern (31 bp):
TTAACCACCCACACCCCACTAAATCCCACAA
Found at i:20224840 original size:28 final size:27
Alignment explanation
Indices: 20224796--20224905 Score: 98
Period size: 28 Copynumber: 4.0 Consensus size: 27
20224786 CTGCACAATC
* *
20224796 GATGTCTTGCACGCTAAGTGCTATACCG
1 GATGTCTTGCACACTAAGTGCCAT-CCG
*
20224824 GATGT-TTCGCACACTAAGTGCCATCCTC
1 GATGTCTT-GCACACTAAGTGCCATCC-G
* * *
20224852 GAT-ACTTCGCACATTAAGTGCCATTTCG
1 GATGTCTT-GCACACTAAGTGCCA-TCCG
*
20224880 GATGTCTTGCACACTAAGTGTCATCC
1 GATGTCTTGCACACTAAGTGCCATCC
20224906 TCAATACTTC
Statistics
Matches: 66, Mismatches: 11, Indels: 11
0.75 0.12 0.12
Matches are distributed among these distances:
27 6 0.09
28 55 0.83
29 5 0.08
ACGTcount: A:0.23, C:0.27, G:0.20, T:0.30
Consensus pattern (27 bp):
GATGTCTTGCACACTAAGTGCCATCCG
Found at i:20224882 original size:56 final size:56
Alignment explanation
Indices: 20224804--20224929 Score: 173
Period size: 56 Copynumber: 2.2 Consensus size: 56
20224794 TCGATGTCTT
* * ** *
20224804 GCACGCTAAGTGCTATACCGGATGT-TTCGCACACTAAGTGCCATCCTCGATACTTC
1 GCACACTAAGTGCCATTTCGGATGTCTT-GCACACTAAGTGCCATCCTCAATACTTC
* *
20224860 GCACATTAAGTGCCATTTCGGATGTCTTGCACACTAAGTGTCATCCTCAATACTTC
1 GCACACTAAGTGCCATTTCGGATGTCTTGCACACTAAGTGCCATCCTCAATACTTC
20224916 GCACACTAAGTGCC
1 GCACACTAAGTGCC
20224930 GTTCGTTTGG
Statistics
Matches: 61, Mismatches: 8, Indels: 2
0.86 0.11 0.03
Matches are distributed among these distances:
56 59 0.97
57 2 0.03
ACGTcount: A:0.25, C:0.29, G:0.18, T:0.28
Consensus pattern (56 bp):
GCACACTAAGTGCCATTTCGGATGTCTTGCACACTAAGTGCCATCCTCAATACTTC
Found at i:20224919 original size:28 final size:28
Alignment explanation
Indices: 20224829--20224929 Score: 125
Period size: 28 Copynumber: 3.6 Consensus size: 28
20224819 TACCGGATGT
20224829 TTCGCACACTAAGTGCCATCCTCGATAC
1 TTCGCACACTAAGTGCCATCCTCGATAC
* * *
20224857 TTCGCACATTAAGTGCCAT-TTCGGATGTC
1 TTCGCACACTAAGTGCCATCCTC-GAT-AC
* *
20224886 TT-GCACACTAAGTGTCATCCTCAATAC
1 TTCGCACACTAAGTGCCATCCTCGATAC
20224913 TTCGCACACTAAGTGCC
1 TTCGCACACTAAGTGCC
20224930 GTTCGTTTGG
Statistics
Matches: 60, Mismatches: 9, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
27 5 0.08
28 50 0.83
29 5 0.08
ACGTcount: A:0.25, C:0.31, G:0.16, T:0.29
Consensus pattern (28 bp):
TTCGCACACTAAGTGCCATCCTCGATAC
Found at i:20227737 original size:3 final size:3
Alignment explanation
Indices: 20227729--20227772 Score: 88
Period size: 3 Copynumber: 14.7 Consensus size: 3
20227719 GTAGTCTCAC
20227729 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AA
20227773 CTTTAATTTT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 41 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:20235145 original size:19 final size:19
Alignment explanation
Indices: 20235121--20235172 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
20235111 TTAGATTACT
20235121 CAAAAACAAACAAACAAAA
1 CAAAAACAAACAAACAAAA
20235140 CAAAAACAAACAAACAAAA
1 CAAAAACAAACAAACAAAA
20235159 CAAAAACAAA-AAAC
1 CAAAAACAAACAAAC
20235173 GAAGTCCAAA
Statistics
Matches: 33, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
18 4 0.12
19 29 0.88
ACGTcount: A:0.79, C:0.21, G:0.00, T:0.00
Consensus pattern (19 bp):
CAAAAACAAACAAACAAAA
Found at i:20235148 original size:15 final size:15
Alignment explanation
Indices: 20235128--20235169 Score: 59
Period size: 15 Copynumber: 2.8 Consensus size: 15
20235118 ACTCAAAAAC
20235128 AAACAAACAAAACAA
1 AAACAAACAAAACAA
20235143 AAACAAAC-AAACAA
1 AAACAAACAAAACAA
*
20235157 AACAAAAACAAAA
1 AA-ACAAACAAAA
20235170 AACGAAGTCC
Statistics
Matches: 24, Mismatches: 1, Indels: 3
0.86 0.04 0.11
Matches are distributed among these distances:
14 8 0.33
15 13 0.54
16 3 0.12
ACGTcount: A:0.81, C:0.19, G:0.00, T:0.00
Consensus pattern (15 bp):
AAACAAACAAAACAA
Found at i:20236593 original size:21 final size:22
Alignment explanation
Indices: 20236569--20236610 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 22
20236559 GAAAGGGAAT
*
20236569 CAAACAGAAAGGAA-ACAAAAG
1 CAAAAAGAAAGGAACACAAAAG
*
20236590 CAAAAAGGAAGGAACACAAAA
1 CAAAAAGAAAGGAACACAAAA
20236611 AAGAAAAAAG
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 12 0.67
22 6 0.33
ACGTcount: A:0.67, C:0.14, G:0.19, T:0.00
Consensus pattern (22 bp):
CAAAAAGAAAGGAACACAAAAG
Found at i:20246498 original size:23 final size:23
Alignment explanation
Indices: 20246430--20246516 Score: 92
Period size: 21 Copynumber: 4.0 Consensus size: 23
20246420 CCTGATCAGT
**
20246430 ATACGACACATAAAGTGCCT-AA
1 ATACGACACACGAAGTGCCTGAA
20246452 A-ACGACACACGAAGTGCCTG--
1 ATACGACACACGAAGTGCCTGAA
* *
20246472 ATACGGCACACGAGGTGCCTGAA
1 ATACGACACACGAAGTGCCTGAA
**
20246495 ATACGACACATAAAGTGCCTGA
1 ATACGACACACGAAGTGCCTGA
20246517 TCAGTAAAGC
Statistics
Matches: 53, Mismatches: 8, Indels: 7
0.78 0.12 0.10
Matches are distributed among these distances:
20 1 0.02
21 33 0.62
22 1 0.02
23 18 0.34
ACGTcount: A:0.38, C:0.25, G:0.22, T:0.15
Consensus pattern (23 bp):
ATACGACACACGAAGTGCCTGAA
Found at i:20246656 original size:24 final size:22
Alignment explanation
Indices: 20246612--20246656 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
20246602 TTTCAATTCT
* *
20246612 CAATTCACTTTCATTTCCAATC
1 CAATTCACTTTCAATTACAATC
20246634 CAATATCACTTTTCAATTACAAT
1 CAAT-TCAC-TTTCAATTACAAT
20246657 TTCACATTCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 4 0.21
23 4 0.21
24 11 0.58
ACGTcount: A:0.33, C:0.27, G:0.00, T:0.40
Consensus pattern (22 bp):
CAATTCACTTTCAATTACAATC
Found at i:20250779 original size:56 final size:56
Alignment explanation
Indices: 20250712--20250828 Score: 225
Period size: 56 Copynumber: 2.1 Consensus size: 56
20250702 ACTTTTAAAC
*
20250712 CAATACACTTGTACCTTGACTAACTTTTCACATAATTAAATTATTAGACCATAATT
1 CAATACACTTGTACCTTGACTAACTTTTCACATAATTAAATTATTAGACCAGAATT
20250768 CAATACACTTGTACCTTGACTAACTTTTCACATAATTAAATTATTAGACCAGAATT
1 CAATACACTTGTACCTTGACTAACTTTTCACATAATTAAATTATTAGACCAGAATT
20250824 CAATA
1 CAATA
20250829 TACTACTATA
Statistics
Matches: 60, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 60 1.00
ACGTcount: A:0.38, C:0.20, G:0.06, T:0.36
Consensus pattern (56 bp):
CAATACACTTGTACCTTGACTAACTTTTCACATAATTAAATTATTAGACCAGAATT
Found at i:20251848 original size:183 final size:185
Alignment explanation
Indices: 20251539--20251908 Score: 591
Period size: 183 Copynumber: 2.0 Consensus size: 185
20251529 ACACAAACAA
*
20251539 CTTTGACTTGTCTAAATTAGCAACCAACCCAGAGGCATCCCCAAACTCCTTAAGACAAGCTCGAA
1 CTTTGACTTGTCTAAATTAGCAACCAACCCAGAGGCATCCCCAAACTCCTTAAGACAAGCTCAAA
* *
20251604 CCAAATCAACTTGATCAATAGACACATGCACAAATAACATGAGATTGTCGGTAAAGAATAAATGA
66 CCAAATCAACTTGATCAATAGAAACATGCACAAATAACATGAGATTGTCAGTAAAGAATAAATGA
* * *
20251669 G-C-GTCGAGCCATTACGAGAAACCTTAAGAGGTTTCCAAAGGCGATTCGCTTGT
131 GTCAGTCGAACCATTACGAGAAACCTTAAAAGGTTTCCAAAGGCCATTCGCTTGT
*
20251722 CTTTGACTTGTCTAAATTAGCAACCATCCCAGAGGCATCCCCAAACTCCTTAAGACAAGCTCAAA
1 CTTTGACTTGTCTAAATTAGCAACCAACCCAGAGGCATCCCCAAACTCCTTAAGACAAGCTCAAA
* * **
20251787 CCAAATCAACTTGATCAATAGAAACATGCATAAATAACGTGAGATTGTCAGTATGGAATAAATGA
66 CCAAATCAACTTGATCAATAGAAACATGCACAAATAACATGAGATTGTCAGTAAAGAATAAATGA
* *
20251852 GTCAAAGTCGAACCATTACGAGAAACGTTAAAAGGTTTCCAAAGTCCATTCGCTTGT
131 GTC--AGTCGAACCATTACGAGAAACCTTAAAAGGTTTCCAAAGGCCATTCGCTTGT
20251909 TTTTCAAGGA
Statistics
Matches: 170, Mismatches: 13, Indels: 4
0.91 0.07 0.02
Matches are distributed among these distances:
183 123 0.72
184 1 0.01
187 46 0.27
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.24
Consensus pattern (185 bp):
CTTTGACTTGTCTAAATTAGCAACCAACCCAGAGGCATCCCCAAACTCCTTAAGACAAGCTCAAA
CCAAATCAACTTGATCAATAGAAACATGCACAAATAACATGAGATTGTCAGTAAAGAATAAATGA
GTCAGTCGAACCATTACGAGAAACCTTAAAAGGTTTCCAAAGGCCATTCGCTTGT
Found at i:20254152 original size:19 final size:19
Alignment explanation
Indices: 20254128--20254167 Score: 55
Period size: 19 Copynumber: 2.1 Consensus size: 19
20254118 ATTAATTTTG
20254128 ATCAAATAAAATT-AAATTA
1 ATCAAAT-AAATTAAAATTA
*
20254147 ATCAAATTAATTAAAATTA
1 ATCAAATAAATTAAAATTA
20254166 AT
1 AT
20254168 ATGATATTTT
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 4 0.21
19 15 0.79
ACGTcount: A:0.60, C:0.05, G:0.00, T:0.35
Consensus pattern (19 bp):
ATCAAATAAATTAAAATTA
Found at i:20254615 original size:62 final size:59
Alignment explanation
Indices: 20254532--20254665 Score: 162
Period size: 62 Copynumber: 2.2 Consensus size: 59
20254522 TCCAAAAATA
* * * * *
20254532 ATATTATTTTAAT-AGATTTAATATTTAATTTAATTTAATGTTCATCTTGTAGATAAATATT
1 ATATTAATTTAATAAAATTTAATATTAAATTTAATCTAATATTCATC-T-T-GATAAATATT
* * *
20254593 CTGTTAATTTAATAAAATTTAATATTAAATTTAATCTAATATTTATCTTGATAAATATT
1 ATATTAATTTAATAAAATTTAATATTAAATTTAATCTAATATTCATCTTGATAAATATT
20254652 ATATTAATTTAATA
1 ATATTAATTTAATA
20254666 TTAAAGTGAT
Statistics
Matches: 62, Mismatches: 10, Indels: 4
0.82 0.13 0.05
Matches are distributed among these distances:
59 22 0.35
60 1 0.02
61 11 0.18
62 28 0.45
ACGTcount: A:0.41, C:0.04, G:0.04, T:0.51
Consensus pattern (59 bp):
ATATTAATTTAATAAAATTTAATATTAAATTTAATCTAATATTCATCTTGATAAATATT
Found at i:20256265 original size:3 final size:3
Alignment explanation
Indices: 20256257--20256310 Score: 74
Period size: 3 Copynumber: 18.3 Consensus size: 3
20256247 AAAACATTAA
* * *
20256257 AAG AAG AAG CAG -AG AAG AAG AAA AAG AAA AAG AAG AAG AAG AAG AAG
1 AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG AAG
20256304 AAG AAG A
1 AAG AAG A
20256311 GAGGAAATGG
Statistics
Matches: 45, Mismatches: 5, Indels: 2
0.87 0.10 0.04
Matches are distributed among these distances:
2 2 0.04
3 43 0.96
ACGTcount: A:0.69, C:0.02, G:0.30, T:0.00
Consensus pattern (3 bp):
AAG
Found at i:20258302 original size:19 final size:20
Alignment explanation
Indices: 20258278--20258328 Score: 70
Period size: 19 Copynumber: 2.6 Consensus size: 20
20258268 ATATTAAGAA
*
20258278 TATTATTAAAATTCAAA-TT
1 TATTATTAAAATTAAAATTT
20258297 TATTATTAAAA-TAAAATTT
1 TATTATTAAAATTAAAATTT
*
20258316 TAATATTAAAATT
1 TATTATTAAAATT
20258329 TTAAAATAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 3
0.85 0.06 0.09
Matches are distributed among these distances:
18 4 0.14
19 23 0.82
20 1 0.04
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (20 bp):
TATTATTAAAATTAAAATTT
Found at i:20259476 original size:21 final size:22
Alignment explanation
Indices: 20259451--20259512 Score: 63
Period size: 26 Copynumber: 2.7 Consensus size: 22
20259441 ATGCTCACAT
20259451 TTTTTTCTCAATGCTTTCCCAA
1 TTTTTTCTCAATGCTTTCCCAA
*
20259473 TTTTTTTTTTCTCAATGCTTTCTCAA
1 ----TTTTTTCTCAATGCTTTCCCAA
*
20259499 -ATTTTCTCAATGCT
1 TTTTTTCTCAATGCT
20259513 AAATTTGGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 5
0.83 0.05 0.12
Matches are distributed among these distances:
21 13 0.38
26 21 0.62
ACGTcount: A:0.18, C:0.23, G:0.05, T:0.55
Consensus pattern (22 bp):
TTTTTTCTCAATGCTTTCCCAA
Found at i:20259483 original size:26 final size:26
Alignment explanation
Indices: 20259450--20259503 Score: 90
Period size: 26 Copynumber: 2.1 Consensus size: 26
20259440 CATGCTCACA
*
20259450 TTTTTTTCTCAATGCTTTCCCAATTT
1 TTTTTTTCTCAATGCTTTCCCAAATT
*
20259476 TTTTTTTCTCAATGCTTTCTCAAATT
1 TTTTTTTCTCAATGCTTTCCCAAATT
20259502 TT
1 TT
20259504 CTCAATGCTA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.17, C:0.20, G:0.04, T:0.59
Consensus pattern (26 bp):
TTTTTTTCTCAATGCTTTCCCAAATT
Found at i:20259671 original size:21 final size:21
Alignment explanation
Indices: 20259645--20259689 Score: 81
Period size: 21 Copynumber: 2.1 Consensus size: 21
20259635 TCTGTTTGGT
20259645 TGGTGAGAAAACTAAAGAAAA
1 TGGTGAGAAAACTAAAGAAAA
*
20259666 TGGTGAGAAAACTGAAGAAAA
1 TGGTGAGAAAACTAAAGAAAA
20259687 TGG
1 TGG
20259690 ATTTCATTGC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.51, C:0.04, G:0.29, T:0.16
Consensus pattern (21 bp):
TGGTGAGAAAACTAAAGAAAA
Found at i:20263097 original size:129 final size:129
Alignment explanation
Indices: 20262867--20263124 Score: 507
Period size: 129 Copynumber: 2.0 Consensus size: 129
20262857 GAGATTTGAA
20262867 CTAGAAAGGTGCCTTCCAGTTGCAATTCTAGTACAAAATACTTATTTTTACCATTGATGACACTG
1 CTAGAAAGGTGCCTTCCAGTTGCAATTCTAGTACAAAATACTTATTTTTACCATTGATGACACTG
*
20262932 TTTAAGGATAGATGATATATTATTGAATAATAATTTATCATTTCTAATTAACTTTAAAGAATGT
66 TTTAAGGATAGATGATAAATTATTGAATAATAATTTATCATTTCTAATTAACTTTAAAGAATGT
20262996 CTAGAAAGGTGCCTTCCAGTTGCAATTCTAGTACAAAATACTTATTTTTACCATTGATGACACTG
1 CTAGAAAGGTGCCTTCCAGTTGCAATTCTAGTACAAAATACTTATTTTTACCATTGATGACACTG
20263061 TTTAAGGATAGATGATAAATTATTGAATAATAATTTATCATTTCTAATTAACTTTAAAGAATGT
66 TTTAAGGATAGATGATAAATTATTGAATAATAATTTATCATTTCTAATTAACTTTAAAGAATGT
20263125 TTACTCAAGT
Statistics
Matches: 128, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
129 128 1.00
ACGTcount: A:0.36, C:0.12, G:0.13, T:0.38
Consensus pattern (129 bp):
CTAGAAAGGTGCCTTCCAGTTGCAATTCTAGTACAAAATACTTATTTTTACCATTGATGACACTG
TTTAAGGATAGATGATAAATTATTGAATAATAATTTATCATTTCTAATTAACTTTAAAGAATGT
Found at i:20274397 original size:26 final size:26
Alignment explanation
Indices: 20274368--20274422 Score: 110
Period size: 26 Copynumber: 2.1 Consensus size: 26
20274358 AATGTCTTTA
20274368 TATATCATTCATTTTAAAGTTTTTTC
1 TATATCATTCATTTTAAAGTTTTTTC
20274394 TATATCATTCATTTTAAAGTTTTTTC
1 TATATCATTCATTTTAAAGTTTTTTC
20274420 TAT
1 TAT
20274423 CTCTACTGTT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 29 1.00
ACGTcount: A:0.27, C:0.11, G:0.04, T:0.58
Consensus pattern (26 bp):
TATATCATTCATTTTAAAGTTTTTTC
Found at i:20279363 original size:17 final size:17
Alignment explanation
Indices: 20279343--20279389 Score: 62
Period size: 17 Copynumber: 2.8 Consensus size: 17
20279333 TACATTTTAT
20279343 ATTATTTATATTATTGA
1 ATTATTTATATTATTGA
20279360 ATTATTTAGTCA-TATTGA
1 ATTATTTA-T-ATTATTGA
20279378 A-TATTTATATTA
1 ATTATTTATATTA
20279390 AAATTGAATT
Statistics
Matches: 27, Mismatches: 0, Indels: 7
0.79 0.00 0.21
Matches are distributed among these distances:
15 1 0.04
16 3 0.11
17 14 0.52
18 8 0.30
19 1 0.04
ACGTcount: A:0.36, C:0.02, G:0.06, T:0.55
Consensus pattern (17 bp):
ATTATTTATATTATTGA
Found at i:20282470 original size:17 final size:17
Alignment explanation
Indices: 20282448--20282481 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
20282438 TTCAAAACAA
20282448 GTTTATTGTATTTGAGG
1 GTTTATTGTATTTGAGG
20282465 GTTTATTGTATTTGAGG
1 GTTTATTGTATTTGAGG
20282482 TTGTGCTTGA
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:0.18, C:0.00, G:0.29, T:0.53
Consensus pattern (17 bp):
GTTTATTGTATTTGAGG
Found at i:20284639 original size:40 final size:40
Alignment explanation
Indices: 20284573--20284739 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
20284563 AAATTGAATG
* * *
20284573 ATATCCGGGCTAAG-CCCGAAGACAATTATGCTGGAAATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
* * ***
20284612 ATATCCGGGTTAAGACCCGAAGGCAATTGTGCTAGTGGCT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
*
20284652 ATATCCGGGCTAAGACCCGAAGGC-ATTCGTGC-GAGTTATT
1 ATATCCGGGCTAAGACCCGAAGGCAATT-GTGCTG-GTAATT
* * * ** *
20284692 CTATCCGGGCTAAGACCCGAAGGCATTTGCGCACGTGATT
1 ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
20284732 ATATCCGG
1 ATATCCGG
20284740 TTATATTCCG
Statistics
Matches: 104, Mismatches: 19, Indels: 9
0.79 0.14 0.07
Matches are distributed among these distances:
39 16 0.15
40 86 0.83
41 2 0.02
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
ATATCCGGGCTAAGACCCGAAGGCAATTGTGCTGGTAATT
Found at i:20286175 original size:25 final size:24
Alignment explanation
Indices: 20286141--20286189 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
20286131 TTATCGAAAA
* *
20286141 ATAAACTTTTAAATATTTTTATTTT
1 ATAAAATTTTAAAT-TTTTAATTTT
*
20286166 ATAAAATTTTTAATTTTTAATTTT
1 ATAAAATTTTAAATTTTTAATTTT
20286190 TAAGAATCAA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 9 0.43
25 12 0.57
ACGTcount: A:0.37, C:0.02, G:0.00, T:0.61
Consensus pattern (24 bp):
ATAAAATTTTAAATTTTTAATTTT
Found at i:20286176 original size:16 final size:18
Alignment explanation
Indices: 20286150--20286182 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
20286140 AATAAACTTT
20286150 TAAATATTTTT-ATTTTA
1 TAAATATTTTTAATTTTA
20286167 TAAA-ATTTTTAATTTT
1 TAAATATTTTTAATTTT
20286183 TAATTTTTAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 9 0.60
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (18 bp):
TAAATATTTTTAATTTTA
Found at i:20289359 original size:25 final size:25
Alignment explanation
Indices: 20289311--20289384 Score: 71
Period size: 25 Copynumber: 3.0 Consensus size: 25
20289301 TACAAGATGT
*
20289311 AAACGGTAAGCTTC-TTTGAGCTGA-
1 AAACGGTAAGC-TCATGTGAGCTGAG
*
20289335 ATAACGGTAAGCTCATGTGATCTGAG
1 A-AACGGTAAGCTCATGTGAGCTGAG
* **
20289361 AATCGGTAAGCTCATACGAGCTGA
1 AAACGGTAAGCTCATGTGAGCTGA
20289385 AATTGGTAAC
Statistics
Matches: 41, Mismatches: 6, Indels: 5
0.79 0.12 0.10
Matches are distributed among these distances:
24 3 0.07
25 37 0.90
26 1 0.02
ACGTcount: A:0.31, C:0.18, G:0.26, T:0.26
Consensus pattern (25 bp):
AAACGGTAAGCTCATGTGAGCTGAG
Found at i:20295619 original size:48 final size:46
Alignment explanation
Indices: 20295539--20295679 Score: 158
Period size: 48 Copynumber: 3.0 Consensus size: 46
20295529 CATACGATGC
* * * *
20295539 CGATGCCGATGCCAAGTCCCAAACATGGTCTTATACGGGATCGTAT
1 CGATGTCGATGCCATGTCCTAGACATGGTCTTATACGGGATCGTAT
* * *
20295585 C-ATGGTGCTGATGCCATGTGCTAGACATGCTCTTATACAGGACCTCGTAT
1 CGAT-GT-C-GATGCCATGTCCTAGACATGGTCTTATACGGGA--TCGTAT
*
20295635 CGATGTCGATGCCATGTCCTAGACATGGTCTTATACGAGATCGTA
1 CGATGTCGATGCCATGTCCTAGACATGGTCTTATACGGGATCGTA
20295680 ATAACCCTAA
Statistics
Matches: 78, Mismatches: 11, Indels: 12
0.77 0.11 0.12
Matches are distributed among these distances:
45 2 0.03
46 7 0.09
47 1 0.01
48 56 0.72
49 1 0.01
50 9 0.12
51 2 0.03
ACGTcount: A:0.24, C:0.24, G:0.24, T:0.28
Consensus pattern (46 bp):
CGATGTCGATGCCATGTCCTAGACATGGTCTTATACGGGATCGTAT
Found at i:20298918 original size:42 final size:42
Alignment explanation
Indices: 20298872--20298984 Score: 145
Period size: 43 Copynumber: 2.7 Consensus size: 42
20298862 GTGTGATTTT
* * *
20298872 GTGTAAGACCATGTCTGGGACATGGCATCGATATGAGATTAC
1 GTGTAAGACCATGTCTGGGATATGGCATCAATATGAGATAAC
* * *
20298914 GTGTAAGACCCTGTCTGGGATAGAGGCATCAATATGTGATAAC
1 GTGTAAGACCATGTCTGGGATA-TGGCATCAATATGAGATAAC
* *
20298957 ATGTAAGACCATATCTGGGATATGGCAT
1 GTGTAAGACCATGTCTGGGATATGGCAT
20298985 TGTATGTGAT
Statistics
Matches: 60, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
42 25 0.42
43 35 0.58
ACGTcount: A:0.30, C:0.16, G:0.27, T:0.27
Consensus pattern (42 bp):
GTGTAAGACCATGTCTGGGATATGGCATCAATATGAGATAAC
Found at i:20309093 original size:43 final size:43
Alignment explanation
Indices: 20309033--20309123 Score: 128
Period size: 43 Copynumber: 2.1 Consensus size: 43
20309023 TTAGGACTTC
* * * **
20309033 CGATATGTGATTTCGTGTAAGACCATGTTTGGGACATTGGCAT
1 CGATATGAGATTACGTGTAAGACCATGTCTGGGACAGAGGCAT
*
20309076 CGATATGAGATTACGTGTAAGACCCTGTCTGGGACAGAGGCAT
1 CGATATGAGATTACGTGTAAGACCATGTCTGGGACAGAGGCAT
20309119 CGATA
1 CGATA
20309124 CGTGATAACA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
43 42 1.00
ACGTcount: A:0.26, C:0.16, G:0.29, T:0.29
Consensus pattern (43 bp):
CGATATGAGATTACGTGTAAGACCATGTCTGGGACAGAGGCAT
Found at i:20312800 original size:20 final size:20
Alignment explanation
Indices: 20312754--20312808 Score: 76
Period size: 20 Copynumber: 2.8 Consensus size: 20
20312744 TACATGGTGA
20312754 AAGGTATCGATACTTTCTTC
1 AAGGTATCGATACTTTCTTC
*
20312774 AAAGTATCGATACTTTCTT-
1 AAGGTATCGATACTTTCTTC
*
20312793 AAGGGTATTGATACTT
1 AA-GGTATCGATACTT
20312809 CTGACTAGGT
Statistics
Matches: 31, Mismatches: 3, Indels: 2
0.86 0.08 0.06
Matches are distributed among these distances:
19 2 0.06
20 29 0.94
ACGTcount: A:0.29, C:0.15, G:0.16, T:0.40
Consensus pattern (20 bp):
AAGGTATCGATACTTTCTTC
Done.