Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr2
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: 61750188
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1877335 characters in sequence are not A, C, G, or T
File 75 of 186
Found at i:24101446 original size:13 final size:13
Alignment explanation
Indices: 24101428--24101455 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
24101418 ACTTCATCGT
24101428 TATTATTAATTAC
1 TATTATTAATTAC
24101441 TATTATTAATTAC
1 TATTATTAATTAC
24101454 TA
1 TA
24101456 ATGGCTAGTG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.07, G:0.00, T:0.54
Consensus pattern (13 bp):
TATTATTAATTAC
Found at i:24103096 original size:15 final size:15
Alignment explanation
Indices: 24103076--24103116 Score: 50
Period size: 14 Copynumber: 2.7 Consensus size: 15
24103066 GTAAAGAGAA
24103076 TAAATTCCA-AAAAAT
1 TAAATT-CATAAAAAT
24103091 TAAATT-ATAAAAAT
1 TAAATTCATAAAAAT
24103105 TAAATTCTATAA
1 TAAATTC-ATAA
24103117 CTAAGAAAAT
Statistics
Matches: 23, Mismatches: 0, Indels: 5
0.82 0.00 0.18
Matches are distributed among these distances:
13 1 0.04
14 12 0.52
15 6 0.26
16 4 0.17
ACGTcount: A:0.59, C:0.07, G:0.00, T:0.34
Consensus pattern (15 bp):
TAAATTCATAAAAAT
Found at i:24103573 original size:9 final size:9
Alignment explanation
Indices: 24103549--24103621 Score: 51
Period size: 9 Copynumber: 7.9 Consensus size: 9
24103539 AAAATTATTA
*
24103549 TTTTAGAAAA
1 TTTTA-AAAT
24103559 TTTTAAAAT
1 TTTTAAAAT
24103568 TTTTAAAAT
1 TTTTAAAAT
*
24103577 ATATATAAAA-
1 -T-TTTAAAAT
*
24103587 -GTTAAAAT
1 TTTTAAAAT
24103595 TTTTATAAAT
1 TTTTA-AAAT
*
24103605 ATTTAAAAT
1 TTTTAAAAT
*
24103614 TCTTAAAA
1 TTTTAAAA
24103622 ATTATTTTGA
Statistics
Matches: 50, Mismatches: 8, Indels: 11
0.72 0.12 0.16
Matches are distributed among these distances:
7 5 0.10
9 25 0.50
10 14 0.28
11 6 0.12
ACGTcount: A:0.51, C:0.01, G:0.03, T:0.45
Consensus pattern (9 bp):
TTTTAAAAT
Found at i:24103619 original size:28 final size:28
Alignment explanation
Indices: 24103555--24103621 Score: 86
Period size: 28 Copynumber: 2.4 Consensus size: 28
24103545 ATTATTTTAG
24103555 AAAATTTTAAAATTTTTAAAATATATAT
1 AAAATTTTAAAATTTTTAAAATATATAT
*
24103583 AAAA-GTTAAAATTTTTATAAATAT-T-T
1 AAAATTTTAAAATTTTTA-AAATATATAT
24103609 AAAATTCTTAAAA
1 AAAATT-TTAAAA
24103622 ATTATTTTGA
Statistics
Matches: 34, Mismatches: 2, Indels: 6
0.81 0.05 0.14
Matches are distributed among these distances:
26 5 0.15
27 13 0.38
28 16 0.47
ACGTcount: A:0.54, C:0.01, G:0.01, T:0.43
Consensus pattern (28 bp):
AAAATTTTAAAATTTTTAAAATATATAT
Found at i:24104577 original size:22 final size:21
Alignment explanation
Indices: 24104552--24104606 Score: 56
Period size: 22 Copynumber: 2.5 Consensus size: 21
24104542 TAATGGTAGC
24104552 AAATATATATAATGCGAATTTT
1 AAATATATATAAT-CGAATTTT
* * * *
24104574 AAATGAAAAATAATTGTATTTT
1 AAAT-ATATATAATCGAATTTT
24104596 AAATATATATA
1 AAATATATATA
24104607 GATGACTTAA
Statistics
Matches: 26, Mismatches: 6, Indels: 3
0.74 0.17 0.09
Matches are distributed among these distances:
21 5 0.19
22 14 0.54
23 7 0.27
ACGTcount: A:0.51, C:0.02, G:0.07, T:0.40
Consensus pattern (21 bp):
AAATATATATAATCGAATTTT
Found at i:24107961 original size:19 final size:19
Alignment explanation
Indices: 24107917--24107953 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 19
24107907 AATAAAAATA
24107917 AAAAATTGAATGTTATTTG
1 AAAAATTGAATGTTATTTG
24107936 ATAAAATT-AATGTTATTT
1 A-AAAATTGAATGTTATTT
24107954 TTAAAAATAT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
19 11 0.65
20 6 0.35
ACGTcount: A:0.43, C:0.00, G:0.11, T:0.46
Consensus pattern (19 bp):
AAAAATTGAATGTTATTTG
Found at i:24107967 original size:21 final size:19
Alignment explanation
Indices: 24107915--24107967 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 19
24107905 TTAATAAAAA
24107915 TAAAAAATTGAATGTTATTT
1 TAAAAAATT-AATGTTATTT
* *
24107935 GATAAAATTAATGTTATTTT
1 TAAAAAATTAATGTTA-TTT
24107955 TAAAAATATTAAT
1 TAAAAA-ATTAAT
24107968 ATATTATTTT
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
19 7 0.26
20 14 0.52
21 6 0.22
ACGTcount: A:0.47, C:0.00, G:0.08, T:0.45
Consensus pattern (19 bp):
TAAAAAATTAATGTTATTT
Found at i:24111827 original size:88 final size:88
Alignment explanation
Indices: 24111678--24111853 Score: 244
Period size: 88 Copynumber: 2.0 Consensus size: 88
24111668 TTTTATTCGA
* * * * **
24111678 TGCTAAGTCGTTATGTCCGTTGCTTTCATCATTCCGAGCTCAAACAAACCAGGGCGTAACTATAG
1 TGCTAAGTCGTTATGTCCGGTGCATTCATCATTCCGAGCTCAAACAAACAAGGACACAACTATAG
24111743 ATGGAAACGCGGCGGATATAATT
66 ATGGAAACGCGGCGGATATAATT
* * * *
24111766 TGCTAAGTCGTTATGTCCGGTGCATTCGTCATTCTGAGCTCAAAGAAACAAGGACACAACTATGG
1 TGCTAAGTCGTTATGTCCGGTGCATTCATCATTCCGAGCTCAAACAAACAAGGACACAACTATAG
* *
24111831 ATGGAAATGTGGCGGATATAATT
66 ATGGAAACGCGGCGGATATAATT
24111854 CTTGTTATTA
Statistics
Matches: 76, Mismatches: 12, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
88 76 1.00
ACGTcount: A:0.30, C:0.19, G:0.24, T:0.27
Consensus pattern (88 bp):
TGCTAAGTCGTTATGTCCGGTGCATTCATCATTCCGAGCTCAAACAAACAAGGACACAACTATAG
ATGGAAACGCGGCGGATATAATT
Found at i:24117181 original size:100 final size:100
Alignment explanation
Indices: 24117008--24117415 Score: 780
Period size: 100 Copynumber: 4.1 Consensus size: 100
24116998 AAAATTAATG
* *
24117008 TTTTTTAGTACAACGAGTGTCACTTTTTTGTATTACCTAATGCATAAGATTATATAATACTAGTA
1 TTTTTTGGTACAACGAATGTCACTTTTTTGTATTACCTAATGCATAAGATTATATAATACTAGTA
24117073 TAATACCCAAGTCATACATTGTGTTAGATAATTAT
66 TAATACCCAAGTCATACATTGTGTTAGATAATTAT
24117108 TTTTTTGGTACAACGAATGTCACTTTTTTGTATTACCTAATGCATAAGATTATATAATACTAGTA
1 TTTTTTGGTACAACGAATGTCACTTTTTTGTATTACCTAATGCATAAGATTATATAATACTAGTA
24117173 TAATACCCAAGTCATACATTGTGTTAGATAATTAT
66 TAATACCCAAGTCATACATTGTGTTAGATAATTAT
24117208 TTTTTTGGTACAACGAATGTCACTTTTTTGTATTACCTAATGCATAAGATTATATAATACTAGTA
1 TTTTTTGGTACAACGAATGTCACTTTTTTGTATTACCTAATGCATAAGATTATATAATACTAGTA
*
24117273 TAATACCTAAGTCATACATTGTGTTAGATAATTAT
66 TAATACCCAAGTCATACATTGTGTTAGATAATTAT
24117308 TTTTTTGGTACAACGAATGTCACTTTTTTGTATTACCTAATGCATAAGATTATATAATACTAGTA
1 TTTTTTGGTACAACGAATGTCACTTTTTTGTATTACCTAATGCATAAGATTATATAATACTAGTA
*
24117373 TAATACCTAAGTCATACATTGTGTTAGATAATTAT
66 TAATACCCAAGTCATACATTGTGTTAGATAATTAT
24117408 TTTTTTGG
1 TTTTTTGG
24117416 AATAATATTT
Statistics
Matches: 305, Mismatches: 3, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
100 305 1.00
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.42
Consensus pattern (100 bp):
TTTTTTGGTACAACGAATGTCACTTTTTTGTATTACCTAATGCATAAGATTATATAATACTAGTA
TAATACCCAAGTCATACATTGTGTTAGATAATTAT
Found at i:24117604 original size:22 final size:23
Alignment explanation
Indices: 24117563--24117613 Score: 77
Period size: 22 Copynumber: 2.3 Consensus size: 23
24117553 TCTTAGCGGA
24117563 ATTATAGAGTAAAAGATTTTGAT
1 ATTATAGAGTAAAAGATTTTGAT
* *
24117586 ATTATA-AGTTAAAGTTTTTGAT
1 ATTATAGAGTAAAAGATTTTGAT
24117608 ATTATA
1 ATTATA
24117614 TTTATATTAA
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
22 20 0.77
23 6 0.23
ACGTcount: A:0.41, C:0.00, G:0.14, T:0.45
Consensus pattern (23 bp):
ATTATAGAGTAAAAGATTTTGAT
Found at i:24120172 original size:12 final size:12
Alignment explanation
Indices: 24120155--24120179 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
24120145 CAATTCAAAG
24120155 TAAAAGTTACTC
1 TAAAAGTTACTC
24120167 TAAAAGTTACTC
1 TAAAAGTTACTC
24120179 T
1 T
24120180 TACAACCCCT
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:0.40, C:0.16, G:0.08, T:0.36
Consensus pattern (12 bp):
TAAAAGTTACTC
Found at i:24124851 original size:29 final size:29
Alignment explanation
Indices: 24124819--24125182 Score: 231
Period size: 29 Copynumber: 12.5 Consensus size: 29
24124809 TAACCGTCCA
* *
24124819 TTTTCATATTCGATGGTTGAAACCATCCC
1 TTTTCATATTCGATGGTCGAAACTATCCC
* ** *
24124848 TTTTCATTAATCGATGGTCGTCACCATCCC
1 TTTTCA-TATTCGATGGTCGAAACTATCCC
* * *
24124878 TTTTCACAGTT-GATGGTC-ATCACCATCCC
1 TTTTCATA-TTCGATGGTCGA-AACTATCCC
* * *
24124907 TTTTCATAATCGATAG-CCAAAGCTATCCC
1 TTTTCATATTCGATGGTCGAAA-CTATCCC
* * * *
24124936 -TTTCATATTCGATAGTCGAAGCAATCCT
1 TTTTCATATTCGATGGTCGAAACTATCCC
* * * ** *
24124964 TTTTCATTTTTGTTGGTCGTCACCATCCC
1 TTTTCATATTCGATGGTCGAAACTATCCC
24124993 TTTTCATAGTT-GATGGTC-ATCAA-TATCCC
1 TTTTCATA-TTCGATGGTCGA--AACTATCCC
* *** *
24125022 TTTTCATAATCGATAACCGAAGCTATCCC
1 TTTTCATATTCGATGGTCGAAACTATCCC
* * * ** *
24125051 TTTTCATATTCAATAGCCGAAGTTATACC
1 TTTTCATATTCGATGGTCGAAACTATCCC
* * *
24125080 TTTTTATATTCGATGG-CTGAAGCTATCCT
1 TTTTCATATTCGATGGTC-GAAACTATCCC
24125109 TTTTCATATTCGATGGTCGAAACTATCCC
1 TTTTCATATTCGATGGTCGAAACTATCCC
* * *
24125138 TTTTCATATTCGATGGCCAAAATTATCCC
1 TTTTCATATTCGATGGTCGAAACTATCCC
*
24125167 TTTTCATTAGTCGATG
1 TTTTCA-TATTCGATG
24125183 ATCACCTATA
Statistics
Matches: 264, Mismatches: 54, Indels: 33
0.75 0.15 0.09
Matches are distributed among these distances:
28 25 0.09
29 200 0.76
30 39 0.15
ACGTcount: A:0.24, C:0.24, G:0.13, T:0.38
Consensus pattern (29 bp):
TTTTCATATTCGATGGTCGAAACTATCCC
Found at i:24125020 original size:86 final size:86
Alignment explanation
Indices: 24124873--24125057 Score: 203
Period size: 86 Copynumber: 2.1 Consensus size: 86
24124863 GGTCGTCACC
*** *
24124873 ATCCCTTTTCACAGTTGATGGTCATCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCC-T
1 ATCCCTTTTCATTTTTGTTGGTCATCACCATCCCTTTTCATAATCGATAGCCAAA-CTATCCCTT
* **
24124937 TTCATATTCGATAGTCGAAGCA
65 TTCATAATCGATAACCGAAGCA
* * * * * *
24124959 ATCCTTTTTCATTTTTGTTGGTCGTCACCATCCCTTTTCATAGTTGATGGTCATCAA-TATCCCT
1 ATCCCTTTTCATTTTTGTTGGTCATCACCATCCCTTTTCATAATCGATAGCCA--AACTATCCCT
*
24125023 TTTCATAATCGATAACCGAAGCT
64 TTTCATAATCGATAACCGAAGCA
24125046 ATCCCTTTTCAT
1 ATCCCTTTTCAT
24125058 ATTCAATAGC
Statistics
Matches: 81, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
86 49 0.60
87 30 0.37
88 2 0.02
ACGTcount: A:0.24, C:0.26, G:0.12, T:0.38
Consensus pattern (86 bp):
ATCCCTTTTCATTTTTGTTGGTCATCACCATCCCTTTTCATAATCGATAGCCAAACTATCCCTTT
TCATAATCGATAACCGAAGCA
Found at i:24125023 original size:115 final size:117
Alignment explanation
Indices: 24124819--24125072 Score: 359
Period size: 115 Copynumber: 2.2 Consensus size: 117
24124809 TAACCGTCCA
* * * *
24124819 TTTTCATATTCGATGGTTGAAACCATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTTTTCA
1 TTTTCATATTCGATAGTCGAAGCAATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTTTTCA
* *
24124884 CAGTTGATGGTCATCACCATCCCTTTTCATAATCGATAGCCAAAGCTATCCC
66 CAGTTGATGGTCATCAACATCCCTTTTCATAATCGATAACCAAAGCTATCCC
* * * *
24124936 -TTTCATATTCGATAGTCGAAGCAATCCTTTTTCATT-TTTGTTGGTCGTCACCATCCCTTTTCA
1 TTTTCATATTCGATAGTCGAAGCAATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTTTTCA
* * *
24124999 TAGTTGATGGTCATCAATATCCCTTTTCATAATCGATAACCGAAGCTATCCC
66 CAGTTGATGGTCATCAACATCCCTTTTCATAATCGATAACCAAAGCTATCCC
* *
24125051 TTTTCATATTCAATAGCCGAAG
1 TTTTCATATTCGATAGTCGAAG
24125073 TTATACCTTT
Statistics
Matches: 121, Mismatches: 15, Indels: 3
0.87 0.11 0.02
Matches are distributed among these distances:
115 71 0.59
116 50 0.41
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (117 bp):
TTTTCATATTCGATAGTCGAAGCAATCCCTTTTCATTAATCGATGGTCGTCACCATCCCTTTTCA
CAGTTGATGGTCATCAACATCCCTTTTCATAATCGATAACCAAAGCTATCCC
Found at i:24127117 original size:43 final size:42
Alignment explanation
Indices: 24127064--24127148 Score: 143
Period size: 43 Copynumber: 2.0 Consensus size: 42
24127054 TCATATTTCA
*
24127064 TTTCTTATCTCATAATCATTTCTCATCTTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCAT-TTTGCCATTTCAATAT
*
24127107 TTTCTCATCTCATATTCATTTCTCATTTTGCCATTTCAATAT
1 TTTCTCATCTCATAATCATTTCTCATTTTGCCATTTCAATAT
24127149 CAATCACATA
Statistics
Matches: 40, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
42 16 0.40
43 24 0.60
ACGTcount: A:0.22, C:0.24, G:0.02, T:0.52
Consensus pattern (42 bp):
TTTCTCATCTCATAATCATTTCTCATTTTGCCATTTCAATAT
Found at i:24127471 original size:49 final size:49
Alignment explanation
Indices: 24127398--24127494 Score: 176
Period size: 49 Copynumber: 2.0 Consensus size: 49
24127388 TCTAACTCAG
*
24127398 CCCGATACAGTTAATAGGGTTCTATTTTACTTTTCAATACAACCAATGA
1 CCCGATACAGTTAATAGGGATCTATTTTACTTTTCAATACAACCAATGA
*
24127447 CCCGATATAGTTAATAGGGATCTATTTTACTTTTCAATACAACCAATG
1 CCCGATACAGTTAATAGGGATCTATTTTACTTTTCAATACAACCAATG
24127495 TCTTAATTTC
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.33, C:0.20, G:0.12, T:0.35
Consensus pattern (49 bp):
CCCGATACAGTTAATAGGGATCTATTTTACTTTTCAATACAACCAATGA
Found at i:24127848 original size:18 final size:19
Alignment explanation
Indices: 24127825--24127860 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
24127815 AATATTACAC
24127825 AATTCAA-TTTCACATTAA
1 AATTCAATTTTCACATTAA
24127843 AATTCAATTTTCACATTA
1 AATTCAATTTTCACATTA
24127861 TATTTTACTT
Statistics
Matches: 17, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
18 7 0.41
19 10 0.59
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (19 bp):
AATTCAATTTTCACATTAA
Found at i:24131283 original size:13 final size:13
Alignment explanation
Indices: 24131265--24131308 Score: 52
Period size: 13 Copynumber: 3.2 Consensus size: 13
24131255 TAGTACACCC
24131265 TCAGTTGCACACT
1 TCAGTTGCACACT
*
24131278 TCAGTTAGTACACCT
1 TCAGTT-GCACA-CT
*
24131293 TTAGTTGCACACT
1 TCAGTTGCACACT
24131306 TCA
1 TCA
24131309 AACTTTCAAC
Statistics
Matches: 25, Mismatches: 4, Indels: 4
0.76 0.12 0.12
Matches are distributed among these distances:
13 10 0.40
14 8 0.32
15 7 0.28
ACGTcount: A:0.25, C:0.27, G:0.14, T:0.34
Consensus pattern (13 bp):
TCAGTTGCACACT
Found at i:24131290 original size:14 final size:14
Alignment explanation
Indices: 24131259--24131308 Score: 50
Period size: 13 Copynumber: 3.6 Consensus size: 14
24131249 ACTAGTTAGT
*
24131259 ACACCCTCAGTTGC
1 ACACCTTCAGTTGC
*
24131273 ACA-CTTCAGTTAGT
1 ACACCTTCAGTT-GC
*
24131287 ACACCTTTAGTTGC
1 ACACCTTCAGTTGC
24131301 ACA-CTTCA
1 ACACCTTCA
24131309 AACTTTCAAC
Statistics
Matches: 29, Mismatches: 5, Indels: 5
0.74 0.13 0.13
Matches are distributed among these distances:
13 11 0.38
14 11 0.38
15 7 0.24
ACGTcount: A:0.26, C:0.32, G:0.12, T:0.30
Consensus pattern (14 bp):
ACACCTTCAGTTGC
Found at i:24131298 original size:28 final size:28
Alignment explanation
Indices: 24131252--24131308 Score: 96
Period size: 28 Copynumber: 2.0 Consensus size: 28
24131242 ATTCTAAACT
24131252 AGTTAGTACACCCTCAGTTGCACACTTC
1 AGTTAGTACACCCTCAGTTGCACACTTC
* *
24131280 AGTTAGTACACCTTTAGTTGCACACTTC
1 AGTTAGTACACCCTCAGTTGCACACTTC
24131308 A
1 A
24131309 AACTTTCAAC
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.26, C:0.28, G:0.14, T:0.32
Consensus pattern (28 bp):
AGTTAGTACACCCTCAGTTGCACACTTC
Found at i:24134037 original size:23 final size:22
Alignment explanation
Indices: 24134000--24134051 Score: 61
Period size: 23 Copynumber: 2.3 Consensus size: 22
24133990 AATAAAAATT
*
24134000 AAATATATTTGATATT-ATATTA
1 AAATAAATTTGATATTGATA-TA
24134022 AAATAAATATTGATATTGATATA
1 AAATAAAT-TTGATATTGATATA
*
24134045 AATTAAA
1 AAATAAA
24134052 AACTATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
22 7 0.27
23 16 0.62
24 3 0.12
ACGTcount: A:0.52, C:0.00, G:0.06, T:0.42
Consensus pattern (22 bp):
AAATAAATTTGATATTGATATA
Found at i:24135087 original size:12 final size:12
Alignment explanation
Indices: 24135070--24135101 Score: 64
Period size: 12 Copynumber: 2.7 Consensus size: 12
24135060 TATTAAAATG
24135070 AATTAAAAACAA
1 AATTAAAAACAA
24135082 AATTAAAAACAA
1 AATTAAAAACAA
24135094 AATTAAAA
1 AATTAAAA
24135102 GCCAATTTTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.75, C:0.06, G:0.00, T:0.19
Consensus pattern (12 bp):
AATTAAAAACAA
Found at i:24136070 original size:46 final size:46
Alignment explanation
Indices: 24136020--24136238 Score: 273
Period size: 46 Copynumber: 4.7 Consensus size: 46
24136010 TGGTTGAGCA
*
24136020 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * *
24136066 TCCGAACTCGTTGAGTTGAGTCCGAGTTCA-TGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* *
24136113 TCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
24136159 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* *
24136205 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24136239 GGGGCGGGTT
Statistics
Matches: 155, Mismatches: 11, Indels: 14
0.86 0.06 0.08
Matches are distributed among these distances:
43 6 0.04
45 3 0.02
46 108 0.70
47 30 0.19
48 3 0.02
50 5 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:24136176 original size:93 final size:93
Alignment explanation
Indices: 24136017--24136238 Score: 301
Period size: 93 Copynumber: 2.4 Consensus size: 93
24136007 GGATGGTTGA
* *
24136017 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
24136082 TGAGTCCGAGTTCATGAGATGTAACTAG
66 TGAGTCCGAGTTCATGAGATGTAACTAG
* * *
24136110 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCATTTATGGATGCGAACGCCCGAGCTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
* *
24136175 TGAGTCCGAGTTCATTTATGGATGCGAAC---
66 TGAGTCCGAGTTCA-TGA--GATG-TAACTAG
*
24136204 GC--CCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTA
24136239 GGGGCGGGTT
Statistics
Matches: 116, Mismatches: 9, Indels: 9
0.87 0.07 0.07
Matches are distributed among these distances:
92 31 0.27
93 74 0.64
94 4 0.03
96 4 0.03
97 3 0.03
ACGTcount: A:0.22, C:0.21, G:0.28, T:0.29
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCATGAGATGTAACTAG
Found at i:24139466 original size:70 final size:70
Alignment explanation
Indices: 24139353--24139486 Score: 259
Period size: 70 Copynumber: 1.9 Consensus size: 70
24139343 AGGCATTATC
*
24139353 TAGTATGATTTCTTCGATGTCGGCTTAGAGATATTTGAGAAAGGGTTATGAAGCTTATTTGGCGA
1 TAGTATGATTTCTTCGATGTCGGCTCAGAGATATTTGAGAAAGGGTTATGAAGCTTATTTGGCGA
24139418 ATATT
66 ATATT
24139423 TAGTATGATTTCTTCGATGTCGGCTCAGAGATATTTGAGAAAGGGTTATGAAGCTTATTTGGCG
1 TAGTATGATTTCTTCGATGTCGGCTCAGAGATATTTGAGAAAGGGTTATGAAGCTTATTTGGCG
24139487 TATTTAATTA
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
70 63 1.00
ACGTcount: A:0.26, C:0.10, G:0.27, T:0.37
Consensus pattern (70 bp):
TAGTATGATTTCTTCGATGTCGGCTCAGAGATATTTGAGAAAGGGTTATGAAGCTTATTTGGCGA
ATATT
Found at i:24141531 original size:100 final size:100
Alignment explanation
Indices: 24141358--24141557 Score: 355
Period size: 100 Copynumber: 2.0 Consensus size: 100
24141348 TTATATCAGG
24141358 GTTACCGTTAACTCCAGAGAAGAAAAATGCCATCTGGGCAATAGTTGATAGACTGACTAAATCGA
1 GTTACCGTTAACTCCAGAGAAGAAAAATGCCATCTGGGCAATAGTTGATAGACTGACTAAATCGA
24141423 CGCATTTTATTCCGGTACGTACAGATTATTCTCTT
66 CGCATTTTATTCCGGTACGTACAGATTATTCTCTT
* * *
24141458 GTTACCGTTAACTCTAGGGAAGAAAAATGCCATCTGGGCAATAGTTGATAGACTGACTAAATCGG
1 GTTACCGTTAACTCCAGAGAAGAAAAATGCCATCTGGGCAATAGTTGATAGACTGACTAAATCGA
* *
24141523 CTCATTTTATTTCGGTACGTACAGATTATTCTCTT
66 CGCATTTTATTCCGGTACGTACAGATTATTCTCTT
24141558 AATAAGTTGG
Statistics
Matches: 95, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
100 95 1.00
ACGTcount: A:0.30, C:0.19, G:0.20, T:0.32
Consensus pattern (100 bp):
GTTACCGTTAACTCCAGAGAAGAAAAATGCCATCTGGGCAATAGTTGATAGACTGACTAAATCGA
CGCATTTTATTCCGGTACGTACAGATTATTCTCTT
Found at i:24141836 original size:76 final size:76
Alignment explanation
Indices: 24141719--24141871 Score: 306
Period size: 76 Copynumber: 2.0 Consensus size: 76
24141709 TTCATCCATA
24141719 AACTGATGGACAATCAGAGAGAATAATTCAGATTCTTGAAGACATGCTCAGATGTTGTGTATTGG
1 AACTGATGGACAATCAGAGAGAATAATTCAGATTCTTGAAGACATGCTCAGATGTTGTGTATTGG
24141784 AATTTCAAGGT
66 AATTTCAAGGT
24141795 AACTGATGGACAATCAGAGAGAATAATTCAGATTCTTGAAGACATGCTCAGATGTTGTGTATTGG
1 AACTGATGGACAATCAGAGAGAATAATTCAGATTCTTGAAGACATGCTCAGATGTTGTGTATTGG
24141860 AATTTCAAGGT
66 AATTTCAAGGT
24141871 A
1 A
24141872 GTTGGGAAAA
Statistics
Matches: 77, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
76 77 1.00
ACGTcount: A:0.35, C:0.12, G:0.24, T:0.30
Consensus pattern (76 bp):
AACTGATGGACAATCAGAGAGAATAATTCAGATTCTTGAAGACATGCTCAGATGTTGTGTATTGG
AATTTCAAGGT
Found at i:24143804 original size:46 final size:45
Alignment explanation
Indices: 24143751--24143922 Score: 163
Period size: 46 Copynumber: 3.7 Consensus size: 45
24143741 TGAGCATCCG
24143751 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCGA
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-GTCGA
** * * *
24143797 AACTCGTTGAGTTGAGTCCGAGTTCGTGAAATAT-AACTAG-GCA-TCCA
1 AACTCGTTGAGTTGAGTCCGAGTTC---ACTTATGGA-T-GCGAAGTCGA
* *
24143844 AACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG-
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-G-TCGA
* *
24143890 AGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 AACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24143923 GCGGGTTACA
Statistics
Matches: 101, Mismatches: 15, Indels: 20
0.74 0.11 0.15
Matches are distributed among these distances:
43 1 0.01
44 7 0.07
45 1 0.01
46 55 0.54
47 28 0.28
48 1 0.01
49 7 0.07
50 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.26, T:0.29
Consensus pattern (45 bp):
AACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAAGTCGA
Found at i:24143903 original size:93 final size:93
Alignment explanation
Indices: 24143744--24143914 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
24143734 GGATGGTTGA
* * * * *
24143744 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCGAAACTCGTTGAGT
1 GCATCCAAACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAACGCCGAAACTCATTGAGT
24143809 TGAGTCCGAGTTCGTGAAATATAACTAG
66 TGAGTCCGAGTTCGTGAAATATAACTAG
*
24143837 GCATCCAAACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCG-AGCTCATTGAG
1 GCATCCAAACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAACG-CCGAAACTCATTGAG
24143901 TTGAGTCCGAGTTC
65 TTGAGTCCGAGTTC
24143915 ACTTATGGGC
Statistics
Matches: 71, Mismatches: 6, Indels: 2
0.90 0.08 0.03
Matches are distributed among these distances:
93 69 0.97
94 2 0.03
ACGTcount: A:0.24, C:0.22, G:0.26, T:0.28
Consensus pattern (93 bp):
GCATCCAAACTCGTTGACTTGAGTCCGAGTTCACTTATGGATGCGAACGCCGAAACTCATTGAGT
TGAGTCCGAGTTCGTGAAATATAACTAG
Found at i:24146365 original size:29 final size:29
Alignment explanation
Indices: 24146331--24146403 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
24146321 AATCAACCGT
*
24146331 GCACACTTAGTGCCATGTACTTT-AAACTC
1 GCACACTTAGTGCCATGCA-TTTCAAACTC
**
24146360 GCACACTTAGTGCCATGCATTTCAAGTTC
1 GCACACTTAGTGCCATGCATTTCAAACTC
*
24146389 GCACACCTAGTGCCA
1 GCACACTTAGTGCCA
24146404 ATCTCACAAT
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
28 3 0.08
29 36 0.92
ACGTcount: A:0.26, C:0.30, G:0.16, T:0.27
Consensus pattern (29 bp):
GCACACTTAGTGCCATGCATTTCAAACTC
Found at i:24154768 original size:46 final size:46
Alignment explanation
Indices: 24154718--24154985 Score: 282
Period size: 46 Copynumber: 5.8 Consensus size: 46
24154708 GGTTGAGCAT
24154718 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * *
24154764 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
24154809 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* * * *
24154857 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--AATG-TAACTAGGC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAA-T--GC
* *
24154902 ATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGT
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
* *
24154950 CCGAGCTCATTGAGTTGAGTCCGAGTTCACTTATGG
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
24154986 GCGGGTTACA
Statistics
Matches: 184, Mismatches: 20, Indels: 36
0.77 0.08 0.15
Matches are distributed among these distances:
42 4 0.02
43 8 0.04
45 8 0.04
46 90 0.49
47 56 0.30
48 7 0.04
50 7 0.04
51 4 0.02
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (46 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGC
Found at i:24154833 original size:47 final size:47
Alignment explanation
Indices: 24154764--24154931 Score: 229
Period size: 47 Copynumber: 3.6 Consensus size: 47
24154754 ATGCGAATGC
24154764 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCAT
* * * *
24154811 CCGAACTCGTTGAGTTGAGTCCGAGTTCACT--TATG-GA-T-GCGAAT
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGAAATGTAACTAG-GCAT
24154855 GCCCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCAT
1 --CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCAT
24154904 CCGAACTCGTTGAGTTGAGTCCGAGTTC
1 CCGAACTCGTTGAGTTGAGTCCGAGTTC
24154932 ACTTATGGAT
Statistics
Matches: 104, Mismatches: 8, Indels: 18
0.80 0.06 0.14
Matches are distributed among these distances:
43 1 0.01
44 4 0.04
45 2 0.02
46 31 0.30
47 59 0.57
48 2 0.02
49 4 0.04
50 1 0.01
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (47 bp):
CCGAACTCGTTGAGTTGAGTCCGAGTTCGTGAAATGTAACTAGGCAT
Found at i:24154873 original size:93 final size:93
Alignment explanation
Indices: 24154714--24154977 Score: 492
Period size: 93 Copynumber: 2.8 Consensus size: 93
24154704 GGATGGTTGA
24154714 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
24154779 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
24154807 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
24154872 TGAGTCCGAGTTCGTGAAATGTAACTAG
66 TGAGTCCGAGTTCGTGAAATGTAACTAG
* * * *
24154900 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGTCCGAGCTCATTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
24154965 TGAGTCCGAGTTC
66 TGAGTCCGAGTTC
24154978 ACTTATGGGC
Statistics
Matches: 167, Mismatches: 4, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
93 167 1.00
ACGTcount: A:0.23, C:0.21, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAAATGTAACTAG
Found at i:24163313 original size:51 final size:51
Alignment explanation
Indices: 24163237--24163359 Score: 167
Period size: 51 Copynumber: 2.4 Consensus size: 51
24163227 GCCTGTGTGG
* * * * *
24163237 CCCACATGCCCAGA-TTGGCCTTGCCCGTGTGGACAATGACCTGGCCCAAAA
1 CCCACATGCCTA-ACTTGGCCTTGCCCATATGGAAAACGACCTGGCCCAAAA
24163288 CCCACATGCCTAACTTGGCCTTGCCCATATGGAAAACGACCTGGCCCAAAA
1 CCCACATGCCTAACTTGGCCTTGCCCATATGGAAAACGACCTGGCCCAAAA
**
24163339 CCCACACACCTAACTTGGCCT
1 CCCACATGCCTAACTTGGCCT
24163360 AGCCTATGTG
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
50 1 0.02
51 63 0.98
ACGTcount: A:0.26, C:0.37, G:0.19, T:0.18
Consensus pattern (51 bp):
CCCACATGCCTAACTTGGCCTTGCCCATATGGAAAACGACCTGGCCCAAAA
Found at i:24165609 original size:14 final size:14
Alignment explanation
Indices: 24165590--24165622 Score: 57
Period size: 14 Copynumber: 2.4 Consensus size: 14
24165580 GTAATCGTCG
24165590 TACGTTATTGGATT
1 TACGTTATTGGATT
*
24165604 TACGTTGTTGGATT
1 TACGTTATTGGATT
24165618 TACGT
1 TACGT
24165623 CGTTTCATAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 18 1.00
ACGTcount: A:0.18, C:0.09, G:0.24, T:0.48
Consensus pattern (14 bp):
TACGTTATTGGATT
Found at i:24180495 original size:25 final size:26
Alignment explanation
Indices: 24180467--24180563 Score: 153
Period size: 26 Copynumber: 3.8 Consensus size: 26
24180457 CTCTTTTAAT
*
24180467 AACTGGGGCA-AAGCCCTTTTTGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
**
24180492 AACTGGGGCA-AAGCCCTTTTCAATA
1 AACTGGGGCATAAGCCCTTTTCGGTA
24180517 AACTGGGGCATAAGCCCTTTTCGGTA
1 AACTGGGGCATAAGCCCTTTTCGGTA
24180543 AACTGGGGCATAAGCCCTTTT
1 AACTGGGGCATAAGCCCTTTT
24180564 GCACTTCCTC
Statistics
Matches: 66, Mismatches: 5, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
25 32 0.48
26 34 0.52
ACGTcount: A:0.26, C:0.23, G:0.25, T:0.27
Consensus pattern (26 bp):
AACTGGGGCATAAGCCCTTTTCGGTA
Found at i:24180537 original size:51 final size:49
Alignment explanation
Indices: 24180454--24180563 Score: 168
Period size: 51 Copynumber: 2.2 Consensus size: 49
24180444 CTGGAGGCCT
*
24180454 AGCCTCTTTTAATAACTGGGGCAAAGCCCTTTTTGGTAAACTGGGGCA-A
1 AGCC-CTTTTAATAACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATA
24180503 AGCCCTTTTCAATAAACTGGGGCATAAGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTT-AAT-AACTGGGGCA-AAGCCCTTTTCGGTAAACTGGGGCATA
24180555 AGCCCTTTT
1 AGCCCTTTT
24180564 GCACTTCCTC
Statistics
Matches: 56, Mismatches: 1, Indels: 5
0.90 0.02 0.08
Matches are distributed among these distances:
48 5 0.09
49 7 0.12
50 10 0.18
51 24 0.43
52 10 0.18
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (49 bp):
AGCCCTTTTAATAACTGGGGCAAAGCCCTTTTCGGTAAACTGGGGCATA
Found at i:24180538 original size:26 final size:25
Alignment explanation
Indices: 24180454--24180563 Score: 134
Period size: 26 Copynumber: 4.4 Consensus size: 25
24180444 CTGGAGGCCT
24180454 AGCCTCTTTT-AAT-AACTGGGGCAA
1 AGCC-CTTTTCAATAAACTGGGGCAA
***
24180478 AGCCCTTTTTGGTAAACTGGGGCAA
1 AGCCCTTTTCAATAAACTGGGGCAA
24180503 AGCCCTTTTCAATAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
**
24180529 AGCCCTTTTCGGTAAACTGGGGCATA
1 AGCCCTTTTCAATAAACTGGGGCA-A
24180555 AGCCCTTTT
1 AGCCCTTTT
24180564 GCACTTCCTC
Statistics
Matches: 76, Mismatches: 7, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
23 5 0.07
24 5 0.07
25 32 0.42
26 34 0.45
ACGTcount: A:0.25, C:0.23, G:0.23, T:0.29
Consensus pattern (25 bp):
AGCCCTTTTCAATAAACTGGGGCAA
Found at i:24180644 original size:11 final size:11
Alignment explanation
Indices: 24180613--24180668 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
24180603 TTATGAATTC
24180613 ATCATGTGCAT
1 ATCATGTGCAT
* *
24180624 TTCA--TACAT
1 ATCATGTGCAT
24180633 ATCATGTGCAT
1 ATCATGTGCAT
*
24180644 ATCA--TACAT
1 ATCATGTGCAT
24180653 ATCATGTGCAT
1 ATCATGTGCAT
24180664 ATCAT
1 ATCAT
24180669 CTCAATCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:24180677 original size:40 final size:38
Alignment explanation
Indices: 24180613--24180687 Score: 98
Period size: 40 Copynumber: 1.9 Consensus size: 38
24180603 TTATGAATTC
*
24180613 ATCATGTGCATTTCATACATATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACATATCATGT--ATATCATACAT
*
24180653 ATCATGTGCATATCATCTCA-ATCATGTATATCATA
1 ATCATGTGCATATCAT-ACATATCATGTATATCATA
24180688 TCCCACGTAC
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
38 8 0.25
40 22 0.69
41 2 0.06
ACGTcount: A:0.33, C:0.20, G:0.09, T:0.37
Consensus pattern (38 bp):
ATCATGTGCATATCATACATATCATGTATATCATACAT
Found at i:24180679 original size:20 final size:20
Alignment explanation
Indices: 24180613--24180668 Score: 103
Period size: 20 Copynumber: 2.8 Consensus size: 20
24180603 TTATGAATTC
*
24180613 ATCATGTGCATTTCATACAT
1 ATCATGTGCATATCATACAT
24180633 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
24180653 ATCATGTGCATATCAT
1 ATCATGTGCATATCAT
24180669 CTCAATCATG
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
20 35 1.00
ACGTcount: A:0.32, C:0.20, G:0.11, T:0.38
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:24180685 original size:9 final size:10
Alignment explanation
Indices: 24180630--24180686 Score: 57
Period size: 9 Copynumber: 5.8 Consensus size: 10
24180620 GCATTTCATA
24180630 CATATCATGT
1 CATATCATGT
*
24180640 GCATATCAT-A
1 -CATATCATGT
24180650 CATATCATGT
1 CATATCATGT
*
24180660 GCATATCATCT
1 -CATATCATGT
24180671 CA-ATCATGT
1 CATATCATGT
24180680 -ATATCAT
1 CATATCAT
24180687 ATCCCACGTA
Statistics
Matches: 39, Mismatches: 4, Indels: 8
0.76 0.08 0.16
Matches are distributed among these distances:
8 1 0.03
9 19 0.49
10 2 0.05
11 17 0.44
ACGTcount: A:0.33, C:0.21, G:0.09, T:0.37
Consensus pattern (10 bp):
CATATCATGT
Found at i:24191903 original size:14 final size:14
Alignment explanation
Indices: 24191884--24191912 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
24191874 ATGCATTTTG
24191884 GCTGATTTGGCTTT
1 GCTGATTTGGCTTT
24191898 GCTGATTTGGCTTT
1 GCTGATTTGGCTTT
24191912 G
1 G
24191913 AGCCATGATA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.07, C:0.14, G:0.31, T:0.48
Consensus pattern (14 bp):
GCTGATTTGGCTTT
Found at i:24199120 original size:15 final size:14
Alignment explanation
Indices: 24199085--24199123 Score: 51
Period size: 15 Copynumber: 2.6 Consensus size: 14
24199075 CTCTAAGGAC
24199085 AAGAAGCAAAATGAG
1 AAGAAG-AAAATGAG
*
24199100 GAGAAGAAAATGAG
1 AAGAAGAAAATGAG
24199114 AAGGAAGAAA
1 AA-GAAGAAA
24199124 CATCATTCAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
14 9 0.43
15 12 0.57
ACGTcount: A:0.62, C:0.03, G:0.31, T:0.05
Consensus pattern (14 bp):
AAGAAGAAAATGAG
Found at i:24201343 original size:13 final size:13
Alignment explanation
Indices: 24201321--24201353 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
24201311 AAGGGTTTGT
24201321 TTAT-TAAACTAA
1 TTATCTAAACTAA
24201333 TTATCTAAACTAA
1 TTATCTAAACTAA
*
24201346 TTAACTAA
1 TTATCTAA
24201354 TTTAATTAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 4 0.21
13 15 0.79
ACGTcount: A:0.48, C:0.12, G:0.00, T:0.39
Consensus pattern (13 bp):
TTATCTAAACTAA
Found at i:24204304 original size:21 final size:20
Alignment explanation
Indices: 24204242--24204311 Score: 68
Period size: 20 Copynumber: 3.2 Consensus size: 20
24204232 TATGTCTTTC
24204242 AAAATAAAATAATAAAATTGAAATG
1 AAAAT-AAA-AATAAAA-T-AAA-G
*
24204267 AAAATAAAATTAAAATAAAG
1 AAAATAAAAATAAAATAAAG
*
24204287 AAAATAAAAATAAGAATAAAT
1 AAAATAAAAATAA-AATAAAG
24204308 AAAA
1 AAAA
24204312 ACATAGGAGG
Statistics
Matches: 41, Mismatches: 3, Indels: 6
0.82 0.06 0.12
Matches are distributed among these distances:
20 13 0.32
21 13 0.32
22 1 0.02
23 6 0.15
24 3 0.07
25 5 0.12
ACGTcount: A:0.74, C:0.00, G:0.06, T:0.20
Consensus pattern (20 bp):
AAAATAAAAATAAAATAAAG
Found at i:24209653 original size:13 final size:13
Alignment explanation
Indices: 24209634--24209664 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
24209624 GGGTTTGTTT
24209634 ACTAAACTAATTA
1 ACTAAACTAATTA
*
24209647 TCTAAACTAATTA
1 ACTAAACTAATTA
24209660 ACTAA
1 ACTAA
24209665 TTTAATTAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.52, C:0.16, G:0.00, T:0.32
Consensus pattern (13 bp):
ACTAAACTAATTA
Found at i:24210518 original size:13 final size:13
Alignment explanation
Indices: 24210500--24210524 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
24210490 GAAAAAGGGA
24210500 CACGCCCGTGTGC
1 CACGCCCGTGTGC
24210513 CACGCCCGTGTG
1 CACGCCCGTGTG
24210525 ACGTGATTAC
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.44, G:0.32, T:0.16
Consensus pattern (13 bp):
CACGCCCGTGTGC
Found at i:24212243 original size:30 final size:31
Alignment explanation
Indices: 24212148--24212429 Score: 183
Period size: 30 Copynumber: 9.4 Consensus size: 31
24212138 ATGGTTGACA
** * * *
24212148 CATCCCTTTTTGTAATTCGATAATCG-AAGT
1 CATCCCTTTTCATAATTTGATAGTCGTAAGC
* * * *
24212178 TATCCCTTTTCATAATTCGACAGCCG-AAGC
1 CATCCCTTTTCATAATTTGATAGTCGTAAGC
* * *
24212208 TATCCCTTTTCATAATTTGATGGTCGTCA-C
1 CATCCCTTTTCATAATTTGATAGTCGTAAGC
** * * * *
24212238 CATCCCTTTTCATTGTTTCATGGTTGTCA-C
1 CATCCCTTTTCATAATTTGATAGTCGTAAGC
*
24212268 CATCCCTTTTCATAATTTGATAGCCG-AAGC
1 CATCCCTTTTCATAATTTGATAGTCGTAAGC
*
24212298 CATCCCTTTTCATAGA-TTGATAGCCG-AAGC
1 CATCCCTTTTCATA-ATTTGATAGTCGTAAGC
* **
24212328 CATCCCTTTTCATAGTACGATAG-C-TGAAGC
1 CATCCCTTTTCATAATTTGATAGTCGT-AAGC
* * * *
24212358 CATCCATTTTCATAATTTTATGGTCGTCA-C
1 CATCCCTTTTCATAATTTGATAGTCGTAAGC
* * *
24212388 CATCCCTTTTCATAA-CTGATAGCCG-AAGT
1 CATCCCTTTTCATAATTTGATAGTCGTAAGC
*
24212417 TATCCCTTTTCAT
1 CATCCCTTTTCAT
24212430 TCGTTGATGA
Statistics
Matches: 201, Mismatches: 42, Indels: 19
0.77 0.16 0.07
Matches are distributed among these distances:
28 1 0.00
29 20 0.10
30 175 0.87
31 4 0.02
32 1 0.00
ACGTcount: A:0.24, C:0.26, G:0.13, T:0.37
Consensus pattern (31 bp):
CATCCCTTTTCATAATTTGATAGTCGTAAGC
Found at i:24212361 original size:90 final size:89
Alignment explanation
Indices: 24212179--24212429 Score: 249
Period size: 90 Copynumber: 2.8 Consensus size: 89
24212169 AATCGAAGTT
* * * * * *
24212179 ATCCCTTTTCATAATTCGACAGCCGAAGCTATCCCTTTTCATAATTTGATGGTCGTCA-CCATCC
1 ATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTTTTCATAA-TTGATAGCCG-AAGCCATCC
* * * * *
24212243 CTTTTCATTGTTTCATGGTTGTCACC
64 CTTTTCATAGTTACATAGCTGTAACC
24212269 ATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTTTTCATAGATTGATAGCCGAAGCCATCCC
1 ATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTTTTCATA-ATTGATAGCCGAAGCCATCCC
24212334 TTTTCATAG-TACGATAGCTG-AAGCC
65 TTTTCATAGTTAC-ATAGCTGTAA-CC
* * * * * * **
24212359 ATCCATTTTCATAATTTTATGGTCGTCA-CCATCCCTTTTCATAACTGATAGCCGAAGTTATCCC
1 ATCCCTTTTCATAATTTGATAGCCG-AAGCCATCCCTTTTCATAATTGATAGCCGAAGCCATCCC
24212423 TTTTCAT
65 TTTTCAT
24212430 TCGTTGATGA
Statistics
Matches: 137, Mismatches: 19, Indels: 11
0.82 0.11 0.07
Matches are distributed among these distances:
89 29 0.21
90 106 0.77
91 2 0.01
ACGTcount: A:0.24, C:0.27, G:0.13, T:0.37
Consensus pattern (89 bp):
ATCCCTTTTCATAATTTGATAGCCGAAGCCATCCCTTTTCATAATTGATAGCCGAAGCCATCCCT
TTTCATAGTTACATAGCTGTAACC
Found at i:24213735 original size:56 final size:56
Alignment explanation
Indices: 24213671--24213779 Score: 155
Period size: 56 Copynumber: 1.9 Consensus size: 56
24213661 AATGGCATAT
* * * ** *
24213671 ATATATGTGTGCGAGTAAGACCACTTTTAATATGTTGGTATCGATATGTGATTCCG
1 ATATATGTGTGCGAATAAGACCACGTCTAATACATTGGCATCGATATGTGATTCCG
*
24213727 ATATATGTGTGCGAATAAGACCACGTCTAGTACATTGGCATCGATATGTGATT
1 ATATATGTGTGCGAATAAGACCACGTCTAATACATTGGCATCGATATGTGATT
24213780 ACATGTAAGA
Statistics
Matches: 46, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
56 46 1.00
ACGTcount: A:0.28, C:0.14, G:0.23, T:0.35
Consensus pattern (56 bp):
ATATATGTGTGCGAATAAGACCACGTCTAATACATTGGCATCGATATGTGATTCCG
Found at i:24214083 original size:44 final size:44
Alignment explanation
Indices: 24214032--24214120 Score: 160
Period size: 44 Copynumber: 2.0 Consensus size: 44
24214022 TTAATTATGT
*
24214032 TATTATCTATATGTGCATTCGTCCAATTTGAATTTGTGGCATAA
1 TATTATCTATATGTGCATTCGGCCAATTTGAATTTGTGGCATAA
*
24214076 TATTATCTATATGTGCATTCGGCTAATTTGAATTTGTGGCATAA
1 TATTATCTATATGTGCATTCGGCCAATTTGAATTTGTGGCATAA
24214120 T
1 T
24214121 TATATGTTTG
Statistics
Matches: 43, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
44 43 1.00
ACGTcount: A:0.27, C:0.12, G:0.17, T:0.44
Consensus pattern (44 bp):
TATTATCTATATGTGCATTCGGCCAATTTGAATTTGTGGCATAA
Found at i:24218428 original size:43 final size:46
Alignment explanation
Indices: 24218380--24218482 Score: 131
Period size: 49 Copynumber: 2.2 Consensus size: 46
24218370 AACTTCCATG
*
24218380 ATATCAAACATGATCT-A-AA-TTTAACCATCACCATGACTTATTA
1 ATATCAAACATGATCTAACAACTTTAACCATCACCATGACTTATCA
**
24218423 ATATCAAACATTTTCTCAACCAATCTTTAACCATCACCATGACTTATCA
1 ATATCAAACATGATCT-AA-CAA-CTTTAACCATCACCATGACTTATCA
24218472 ATATCAAACAT
1 ATATCAAACAT
24218483 TTTCTCAACC
Statistics
Matches: 51, Mismatches: 3, Indels: 6
0.85 0.05 0.10
Matches are distributed among these distances:
43 14 0.27
45 1 0.02
47 2 0.04
49 34 0.67
ACGTcount: A:0.41, C:0.24, G:0.03, T:0.32
Consensus pattern (46 bp):
ATATCAAACATGATCTAACAACTTTAACCATCACCATGACTTATCA
Found at i:24218455 original size:49 final size:49
Alignment explanation
Indices: 24218399--24218494 Score: 183
Period size: 49 Copynumber: 2.0 Consensus size: 49
24218389 ATGATCTAAA
*
24218399 TTTAACCATCACCATGACTTATTAATATCAAACATTTTCTCAACCAATC
1 TTTAACCATCACCATGACTTATCAATATCAAACATTTTCTCAACCAATC
24218448 TTTAACCATCACCATGACTTATCAATATCAAACATTTTCTCAACCAA
1 TTTAACCATCACCATGACTTATCAATATCAAACATTTTCTCAACCAA
24218495 ACATGGCCAT
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
49 46 1.00
ACGTcount: A:0.38, C:0.27, G:0.02, T:0.33
Consensus pattern (49 bp):
TTTAACCATCACCATGACTTATCAATATCAAACATTTTCTCAACCAATC
Found at i:24238440 original size:80 final size:79
Alignment explanation
Indices: 24238356--24238527 Score: 220
Period size: 79 Copynumber: 2.2 Consensus size: 79
24238346 GGACTAAGAT
*
24238356 CCGAAGGCATTTGTGCGAGATA-CAAATTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACT
1 CCGAAGGCATTTGTGCGAGATATCAAA-TCCGGGTTAAGCCCCGAAGG-CATTGTGCGAGATACT
* *
24238420 AAATCCGGGTTAAGTC
64 AAAACCGGGCTAAGTC
* * * * * * *
24238436 CCGAAGGCATTCGTGCGAGTTATTAAATCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
*
24238501 AACCGGGCTATGTC
66 AACCGGGCTAAGTC
24238515 CCGAAGGCATTTG
1 CCGAAGGCATTTG
24238528 AACGAGGAGC
Statistics
Matches: 79, Mismatches: 12, Indels: 3
0.84 0.13 0.03
Matches are distributed among these distances:
79 38 0.48
80 38 0.48
81 3 0.04
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.26
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATATCAAATCCGGGTTAAGCCCCGAAGGCATTGTGCGAGATACTAA
AACCGGGCTAAGTC
Found at i:24238507 original size:39 final size:39
Alignment explanation
Indices: 24238303--24238525 Score: 209
Period size: 40 Copynumber: 5.6 Consensus size: 39
24238293 TTGAATGCTG
* * * * *
24238303 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTA-AGTGAATATA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGA-T-ACTAAA
**
24238343 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATAC-AAA
1 TCCGGGTTAAG-TCCCGAAGGCA-TTGTGCGAGATACTAAA
* *
24238382 TTCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAA
1 -TCCGGGTTAAGTCCCGAAGG-CATTGTGCGAGATACTAAA
* *
24238423 TCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGTTATTAAA
1 TCCGGGTTAAGTCCCGAAGGCATT-GTGCGAGATACTAAA
* * *
24238463 TCCGGGTTATGTCCCGAAGGCATTGTGTGAGTTACTAAA
1 TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
* * *
24238502 ACCGGGCTATGTCCCGAAGGCATT
1 TCCGGGTTAAGTCCCGAAGGCATT
24238526 TGAACGAGGA
Statistics
Matches: 157, Mismatches: 18, Indels: 17
0.82 0.09 0.09
Matches are distributed among these distances:
39 40 0.25
40 103 0.66
41 13 0.08
42 1 0.01
ACGTcount: A:0.26, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
TCCGGGTTAAGTCCCGAAGGCATTGTGCGAGATACTAAA
Found at i:24238545 original size:79 final size:80
Alignment explanation
Indices: 24238383--24238560 Score: 191
Period size: 79 Copynumber: 2.2 Consensus size: 80
24238373 AGATACAAAT
* * * *
24238383 TCCGGGTTAAGCCCCGAAGGCCTTTGTGCGAGATACTAAATCCGGGTTAAGTCCCGAAGGCATTC
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
** * *
24238448 GTGCGAGTTATTAAA
66 GAACGAGTGACTAAA
* * * * *
24238463 TCCGGGTTATGTCCCGAAGG-CATTGTGTGAGTTACTAAAACCGGGCTATGTCCCGAAGGCATTT
1 TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
*
24238527 GAACGAG-GAGCTATA
66 GAACGAGTGA-CTAAA
*
24238542 TCC-GGTTAAATCCCGAAGG
1 TCCGGGTTAAGTCCCGAAGG
24238561 TACGTGATTT
Statistics
Matches: 81, Mismatches: 16, Indels: 4
0.80 0.16 0.04
Matches are distributed among these distances:
78 15 0.19
79 48 0.59
80 18 0.22
ACGTcount: A:0.25, C:0.22, G:0.28, T:0.25
Consensus pattern (80 bp):
TCCGGGTTAAGTCCCGAAGGCCATTGTGCGAGATACTAAAACCGGGCTAAGTCCCGAAGGCATTC
GAACGAGTGACTAAA
Found at i:24245029 original size:17 final size:17
Alignment explanation
Indices: 24245007--24245066 Score: 59
Period size: 17 Copynumber: 3.4 Consensus size: 17
24244997 TATATTTTTC
*
24245007 TCATACATTAGATCAAT
1 TCATACATTAAATCAAT
* *
24245024 TCATACAATCACCATTC-AT
1 TCATAC-ATTA--AATCAAT
24245043 TCATACATTAAATCAAT
1 TCATACATTAAATCAAT
24245060 TCATACA
1 TCATACA
24245067 ATCACCATTC
Statistics
Matches: 34, Mismatches: 5, Indels: 8
0.72 0.11 0.17
Matches are distributed among these distances:
16 3 0.09
17 15 0.44
18 6 0.18
19 8 0.24
20 2 0.06
ACGTcount: A:0.42, C:0.23, G:0.02, T:0.33
Consensus pattern (17 bp):
TCATACATTAAATCAAT
Found at i:24245046 original size:19 final size:19
Alignment explanation
Indices: 24245022--24245080 Score: 70
Period size: 19 Copynumber: 3.2 Consensus size: 19
24245012 CATTAGATCA
24245022 ATTCATACAATCACCATTC
1 ATTCATACAATCACCATTC
* *
24245041 ATTCATAC-ATTA--AATC
1 ATTCATACAATCACCATTC
24245057 AATTCATACAATCACCATTC
1 -ATTCATACAATCACCATTC
24245077 ATTC
1 ATTC
24245081 TTAAACAATT
Statistics
Matches: 32, Mismatches: 4, Indels: 8
0.73 0.09 0.18
Matches are distributed among these distances:
16 3 0.09
17 8 0.25
18 6 0.19
19 12 0.38
20 3 0.09
ACGTcount: A:0.39, C:0.27, G:0.00, T:0.34
Consensus pattern (19 bp):
ATTCATACAATCACCATTC
Found at i:24245058 original size:36 final size:36
Alignment explanation
Indices: 24245007--24245080 Score: 139
Period size: 36 Copynumber: 2.1 Consensus size: 36
24244997 TATATTTTTC
*
24245007 TCATACATTAGATCAATTCATACAATCACCATTCAT
1 TCATACATTAAATCAATTCATACAATCACCATTCAT
24245043 TCATACATTAAATCAATTCATACAATCACCATTCAT
1 TCATACATTAAATCAATTCATACAATCACCATTCAT
24245079 TC
1 TC
24245081 TTAAACAATT
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 37 1.00
ACGTcount: A:0.39, C:0.26, G:0.01, T:0.34
Consensus pattern (36 bp):
TCATACATTAAATCAATTCATACAATCACCATTCAT
Found at i:24250037 original size:41 final size:41
Alignment explanation
Indices: 24249974--24250125 Score: 146
Period size: 41 Copynumber: 3.7 Consensus size: 41
24249964 CGATATATCG
*
24249974 CACACTAAGTGCCAATACATAGCCGAAGCTATTTTAATCTCA
1 CACACTAAATGCC-ATACATAGCCGAAGCTATTTTAATCTCA
* * * * *
24250016 CACACTAATTGCCTTACATAGCCGAAGCTATCTTAGTCTCG
1 CACACTAAATGCCATACATAGCCGAAGCTATTTTAATCTCA
* ** * *
24250057 CACACTAAATGCCATATATAGTTGAAGCCATTTTGAA--TCG
1 CACACTAAATGCCATACATAGCCGAAGCTATTTT-AATCTCA
* * *
24250097 CACACTAAGTGCCAAATATAGCCGAAGCT
1 CACACTAAATGCCATACATAGCCGAAGCT
24250126 TTCTTGAATT
Statistics
Matches: 91, Mismatches: 18, Indels: 4
0.81 0.16 0.04
Matches are distributed among these distances:
40 27 0.30
41 51 0.56
42 13 0.14
ACGTcount: A:0.34, C:0.26, G:0.14, T:0.26
Consensus pattern (41 bp):
CACACTAAATGCCATACATAGCCGAAGCTATTTTAATCTCA
Found at i:24250110 original size:40 final size:40
Alignment explanation
Indices: 24249970--24250152 Score: 149
Period size: 40 Copynumber: 4.5 Consensus size: 40
24249960 TACTCGATAT
*
24249970 ATCGCACACTAAGTGCCAATACATAGCCGAAGCTATT-TT-A
1 ATCGCACACTAAGTGCC-ATATATAGCCGAAGC-ATTCTTGA
* * * * *
24250010 ATCTCACACACTAATTGCCTTACATAGCCGAAGC-TATCTTAGT
1 A--TCGCACACTAAGTGCCATATATAGCCGAAGCAT-TCTT-GA
* * **
24250053 CTCGCACACTAAATGCCATATATAGTTGAAGCCATT-TTGA
1 ATCGCACACTAAGTGCCATATATAGCCGAAG-CATTCTTGA
* *
24250093 ATCGCACACTAAGTGCCAAATATAGCCGAAGCTTTCTTGA
1 ATCGCACACTAAGTGCCATATATAGCCGAAGCATTCTTGA
* *
24250133 ATTGCATACTAAGTGCCATA
1 ATCGCACACTAAGTGCCATA
24250153 AATATATTCA
Statistics
Matches: 113, Mismatches: 21, Indels: 18
0.74 0.14 0.12
Matches are distributed among these distances:
39 4 0.04
40 50 0.44
41 42 0.37
42 16 0.14
43 1 0.01
ACGTcount: A:0.33, C:0.25, G:0.15, T:0.28
Consensus pattern (40 bp):
ATCGCACACTAAGTGCCATATATAGCCGAAGCATTCTTGA
Found at i:24250507 original size:20 final size:20
Alignment explanation
Indices: 24250482--24250527 Score: 74
Period size: 20 Copynumber: 2.3 Consensus size: 20
24250472 CACATAAAAT
*
24250482 TGCAAATTCATTCAATTTAG
1 TGCAAATTCATGCAATTTAG
24250502 TGCAAATTCATGCAATTTAG
1 TGCAAATTCATGCAATTTAG
*
24250522 TACAAA
1 TGCAAA
24250528 CCCATGCTTA
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.35
Consensus pattern (20 bp):
TGCAAATTCATGCAATTTAG
Found at i:24250533 original size:20 final size:20
Alignment explanation
Indices: 24250494--24250534 Score: 55
Period size: 20 Copynumber: 2.0 Consensus size: 20
24250484 CAAATTCATT
* **
24250494 CAATTTAGTGCAAATTCATG
1 CAATTTAGTACAAACCCATG
24250514 CAATTTAGTACAAACCCATG
1 CAATTTAGTACAAACCCATG
24250534 C
1 C
24250535 TTAGCCGAAT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.37, C:0.22, G:0.12, T:0.29
Consensus pattern (20 bp):
CAATTTAGTACAAACCCATG
Found at i:24254590 original size:38 final size:38
Alignment explanation
Indices: 24254539--24254612 Score: 130
Period size: 38 Copynumber: 1.9 Consensus size: 38
24254529 TTAGTTAAAC
*
24254539 CAAATGGCATCACAAAAAATTCATAGTTTTCGTACCAT
1 CAAATGGCATCACAAAAAATTCATAGTGTTCGTACCAT
*
24254577 CAAATGGCATCACAAGAAATTCATAGTGTTCGTACC
1 CAAATGGCATCACAAAAAATTCATAGTGTTCGTACC
24254613 TAGTTCTGAA
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
38 34 1.00
ACGTcount: A:0.38, C:0.22, G:0.14, T:0.27
Consensus pattern (38 bp):
CAAATGGCATCACAAAAAATTCATAGTGTTCGTACCAT
Found at i:24258504 original size:28 final size:28
Alignment explanation
Indices: 24258463--24258525 Score: 99
Period size: 28 Copynumber: 2.2 Consensus size: 28
24258453 ACGGGTTTTT
24258463 GGACACGGGCGTGTCTAGGCCATGTGAG
1 GGACACGGGCGTGTCTAGGCCATGTGAG
* * *
24258491 GGACACGGGTGTGTCTATGCCGTGTGAG
1 GGACACGGGCGTGTCTAGGCCATGTGAG
24258519 GGACACG
1 GGACACG
24258526 TGCTAGGGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.17, C:0.21, G:0.43, T:0.19
Consensus pattern (28 bp):
GGACACGGGCGTGTCTAGGCCATGTGAG
Found at i:24258647 original size:23 final size:23
Alignment explanation
Indices: 24258616--24258675 Score: 102
Period size: 23 Copynumber: 2.6 Consensus size: 23
24258606 ACGGGTGGGA
24258616 CACACGGGCGTGTGCTTTGCCTC
1 CACACGGGCGTGTGCTTTGCCTC
* *
24258639 TACACGGGCATGTGCTTTGCCTC
1 CACACGGGCGTGTGCTTTGCCTC
24258662 CACACGGGCGTGTG
1 CACACGGGCGTGTG
24258676 AGGCATAGCT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
23 33 1.00
ACGTcount: A:0.12, C:0.32, G:0.32, T:0.25
Consensus pattern (23 bp):
CACACGGGCGTGTGCTTTGCCTC
Found at i:24266552 original size:30 final size:31
Alignment explanation
Indices: 24266518--24266583 Score: 89
Period size: 30 Copynumber: 2.2 Consensus size: 31
24266508 TCCCTCTTTG
* *
24266518 TAATTCGATAACCGAAGTTATCAC-TTTTCA
1 TAATTCGATAACCAAAGCTATCACTTTTTCA
* *
24266548 TAATTCGATAGCCAAAGCTATCTCTTTTTCA
1 TAATTCGATAACCAAAGCTATCACTTTTTCA
24266579 TAATT
1 TAATT
24266584 TGATGGATGC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
30 20 0.65
31 11 0.35
ACGTcount: A:0.32, C:0.20, G:0.09, T:0.39
Consensus pattern (31 bp):
TAATTCGATAACCAAAGCTATCACTTTTTCA
Found at i:24266609 original size:30 final size:30
Alignment explanation
Indices: 24266573--24266647 Score: 87
Period size: 30 Copynumber: 2.5 Consensus size: 30
24266563 AGCTATCTCT
*
24266573 TTTTCATAATTTGATGGATGCCACCATCCC
1 TTTTCATAATTTGATGGATGCCACAATCCC
** * * *
24266603 TTTTCATTGTTCGATGGTTGTCACAATCCC
1 TTTTCATAATTTGATGGATGCCACAATCCC
*
24266633 TTTTCAAAATTTGAT
1 TTTTCATAATTTGAT
24266648 AGCAGAAGCC
Statistics
Matches: 35, Mismatches: 10, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
30 35 1.00
ACGTcount: A:0.23, C:0.21, G:0.13, T:0.43
Consensus pattern (30 bp):
TTTTCATAATTTGATGGATGCCACAATCCC
Found at i:24271913 original size:20 final size:21
Alignment explanation
Indices: 24271867--24271913 Score: 62
Period size: 20 Copynumber: 2.3 Consensus size: 21
24271857 GTTGATTTCG
24271867 TACTTTGGCCCATTTTCTCCT
1 TACTTTGGCCCATTTTCTCCT
* *
24271888 T-TTTTGGCCCA-TTTCTCGT
1 TACTTTGGCCCATTTTCTCCT
24271907 TACTTTG
1 TACTTTG
24271914 ACTCTCTTGT
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
19 8 0.36
20 13 0.59
21 1 0.05
ACGTcount: A:0.09, C:0.28, G:0.13, T:0.51
Consensus pattern (21 bp):
TACTTTGGCCCATTTTCTCCT
Found at i:24274194 original size:27 final size:27
Alignment explanation
Indices: 24274164--24274736 Score: 707
Period size: 27 Copynumber: 21.3 Consensus size: 27
24274154 TTAGTTTATC
24274164 AAATTACCAAAATACCCCTGGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* ** *
24274191 AAATTACTAAAATACCGTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
24274218 AAATCACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
24274245 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
24274272 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
24274299 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
24274326 AAATCACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
24274353 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
24274380 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * *
24274407 AAATTACTAAAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
24274434 AAATCACCAAAATACCCCTGATTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* **
24274461 AAATTACCAAAATACCCTTGGTTTACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
24274488 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
24274515 AAATTACTAGAATACCCTTGGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
24274542 AAATCACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
** ***
24274569 AAATTACCAAAATACCATTGGTTCACA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
24274596 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* * * *
24274623 AAATTACTAAAATACCCTTTGTTTATA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
24274650 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
*
24274677 AAATTACCAAAATACCCCTAGTTTGTA
1 AAATTACCAAAATACCCCTGGTTTGTA
* *
24274704 AAATTACCAAAA-ACCCCTGATTTGTT
1 AAATTACCAAAATACCCCTGGTTTGTA
24274730 AAATTAC
1 AAATTAC
24274737 TGAAATACAC
Statistics
Matches: 456, Mismatches: 90, Indels: 1
0.83 0.16 0.00
Matches are distributed among these distances:
26 18 0.04
27 438 0.96
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (27 bp):
AAATTACCAAAATACCCCTGGTTTGTA
Found at i:24274229 original size:54 final size:54
Alignment explanation
Indices: 24274157--24274744 Score: 880
Period size: 54 Copynumber: 10.9 Consensus size: 54
24274147 GAATACTTTA
* * *
24274157 GTTTATCAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCGTTG
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTG
* *
24274211 GTTTATAAAATCACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTTG
1 GTTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCTTG
*
24274265 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTG
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTG
* *
24274319 GTTTATAAAATCACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTTG
1 GTTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCTTG
*
24274373 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTG
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTG
* *
24274427 GTTTATAAAATCACCAAAATACCCCT-GATTTGTAAAATTACCAAAATACCCTTG
1 GTTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATACCCTTG
* *
24274481 GTTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAATACCCTTG
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTG
* * *
24274535 GTTTATAAAATCACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCATTG
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTG
* * *
24274589 GTTCACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTT
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTG
* * *
24274643 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAATACCCCTA
1 GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTG
* * *
24274697 GTTTGTAAAATTACCAAAA-ACCCCT-GATTTGTTAAATTACTGAAATAC
1 GTTTATAAAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATAC
24274745 ACTCGACCTG
Statistics
Matches: 487, Mismatches: 40, Indels: 15
0.90 0.07 0.03
Matches are distributed among these distances:
52 1 0.00
53 27 0.06
54 456 0.94
55 3 0.01
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (54 bp):
GTTTATAAAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTG
Found at i:24274346 original size:108 final size:108
Alignment explanation
Indices: 24274164--24274744 Score: 990
Period size: 108 Copynumber: 5.4 Consensus size: 108
24274154 TTAGTTTATC
* *
24274164 AAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCGTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
24274229 ATACCCCTGATTTGTAAAATTACCAAAATACCCTTGGTTTACA
66 ATACCCCTGATTTGTAAAATTACCAAAATACCCTTGGTTTACA
24274272 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
24274337 ATACCCCTGATTTGTAAAATTACCAAAATACCCTTGGTTTACA
66 ATACCCCTGATTTGTAAAATTACCAAAATACCCTTGGTTTACA
24274380 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
24274445 ATACCCCTGATTTGTAAAATTACCAAAATACCCTTGGTTTACA
66 ATACCCCTGATTTGTAAAATTACCAAAATACCCTTGGTTTACA
*
24274488 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAGAATACCCTTGGTTTATAAAATCACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
* *
24274553 ATACCCCT-AGTTTGTAAAATTACCAAAATACCATTGGTTCACA
66 ATACCCCTGA-TTTGTAAAATTACCAAAATACCCTTGGTTTACA
* *
24274596 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTTGTTTATAAAATTACCAAA
1 AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
* * **
24274661 ATACCCCT-AGTTTGTAAAATTACCAAAATACCCCTAGTTTGTA
66 ATACCCCTGA-TTTGTAAAATTACCAAAATACCCTTGGTTTACA
* *
24274704 AAATTACCAAAA-ACCCCT-GATTTGTTAAATTACTGAAATAC
1 AAATTACCAAAATACCCCTAG-TTTGTAAAATTACTAAAATAC
24274745 ACTCGACCTG
Statistics
Matches: 455, Mismatches: 16, Indels: 5
0.96 0.03 0.01
Matches are distributed among these distances:
106 1 0.00
107 26 0.06
108 428 0.94
ACGTcount: A:0.41, C:0.21, G:0.08, T:0.31
Consensus pattern (108 bp):
AAATTACCAAAATACCCCTAGTTTGTAAAATTACTAAAATACCCTTGGTTTATAAAATCACCAAA
ATACCCCTGATTTGTAAAATTACCAAAATACCCTTGGTTTACA
Found at i:24274758 original size:26 final size:26
Alignment explanation
Indices: 24274729--24274789 Score: 95
Period size: 26 Copynumber: 2.3 Consensus size: 26
24274719 CCTGATTTGT
24274729 TAAATTACTGAAATACACTCGACCTG
1 TAAATTACTGAAATACACTCGACCTG
* *
24274755 TAAATTATTGAAATACACTCGACTTG
1 TAAATTACTGAAATACACTCGACCTG
24274781 TAAAATTAC
1 T-AAATTAC
24274790 CAAAGTACCC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
26 25 0.81
27 6 0.19
ACGTcount: A:0.41, C:0.18, G:0.10, T:0.31
Consensus pattern (26 bp):
TAAATTACTGAAATACACTCGACCTG
Found at i:24274852 original size:27 final size:27
Alignment explanation
Indices: 24274782--24274854 Score: 76
Period size: 27 Copynumber: 2.7 Consensus size: 27
24274772 CTCGACTTGT
**
24274782 AAAATTACC-AAAGTACCCTTGATTTAC
1 AAAATTACCGAAA-TACCCTCAATTTAC
* ***
24274809 AGAATTACCGTTTTACCCTCAATTTAC
1 AAAATTACCGAAATACCCTCAATTTAC
24274836 AAAATTACCGAAATACCCT
1 AAAATTACCGAAATACCCT
24274855 TGTAGGGTAG
Statistics
Matches: 35, Mismatches: 10, Indels: 2
0.74 0.21 0.04
Matches are distributed among these distances:
27 35 1.00
ACGTcount: A:0.38, C:0.25, G:0.07, T:0.30
Consensus pattern (27 bp):
AAAATTACCGAAATACCCTCAATTTAC
Found at i:24274874 original size:27 final size:27
Alignment explanation
Indices: 24274844--24274975 Score: 153
Period size: 27 Copynumber: 4.9 Consensus size: 27
24274834 ACAAAATTAC
*
24274844 CGAAATACCCTTGTAGGGTAGAAATGT
1 CGAAATACCCTTGTAGGGTAGAAATAT
24274871 CGAAATACCCTTGTAGGGTAGAAATAT
1 CGAAATACCCTTGTAGGGTAGAAATAT
* *
24274898 CGAAATACCCCTGTAGGGTAGAATTA-
1 CGAAATACCCTTGTAGGGTAGAAATAT
** * *
24274924 CTGAAATACTCC-TGTAAAGTAGAATTAC
1 C-GAAATAC-CCTTGTAGGGTAGAAATAT
*
24274952 CGAGATACCCTTGTAGGGTA-AAAT
1 CGAAATACCCTTGTAGGGTAGAAAT
24274976 TACCATTTTA
Statistics
Matches: 92, Mismatches: 9, Indels: 9
0.84 0.08 0.08
Matches are distributed among these distances:
26 6 0.07
27 83 0.90
28 3 0.03
ACGTcount: A:0.36, C:0.17, G:0.22, T:0.26
Consensus pattern (27 bp):
CGAAATACCCTTGTAGGGTAGAAATAT
Found at i:24274902 original size:54 final size:55
Alignment explanation
Indices: 24274841--24274978 Score: 169
Period size: 54 Copynumber: 2.6 Consensus size: 55
24274831 TTTACAAAAT
**
24274841 TACCGAAATACCCTTGTAGGGTAGAAATGT-C-GAAATAC-CCTTGTAGGGTAGAAA
1 TACCGAAATACCCTTGTAGGGTAGAAAT-TACTGAAATACTCC-TGTAAAGTAGAAA
* * *
24274895 TATCGAAATACCCCTGTAGGGTAG-AATTACTGAAATACTCCTGTAAAGTAGAAT
1 TACCGAAATACCCTTGTAGGGTAGAAATTACTGAAATACTCCTGTAAAGTAGAAA
*
24274949 TACCGAGATACCCTTGTAGGGTA-AAATTAC
1 TACCGAAATACCCTTGTAGGGTAGAAATTAC
24274979 CATTTTACCC
Statistics
Matches: 72, Mismatches: 8, Indels: 8
0.82 0.09 0.09
Matches are distributed among these distances:
52 1 0.01
53 4 0.06
54 65 0.90
55 2 0.03
ACGTcount: A:0.36, C:0.17, G:0.21, T:0.26
Consensus pattern (55 bp):
TACCGAAATACCCTTGTAGGGTAGAAATTACTGAAATACTCCTGTAAAGTAGAAA
Found at i:24275403 original size:6 final size:6
Alignment explanation
Indices: 24275394--24275605 Score: 132
Period size: 6 Copynumber: 34.3 Consensus size: 6
24275384 TTGCATTCAC
* *
24275394 ATTCTG ATTCTG ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG
* * * *
24275444 ATTCTA ATTCTG ATTCTG -TTACCTA ATTCTG ATTCTG GTTCTG ATTTTG
1 ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATTCTG
* *
24275493 ATTCTG -TTACCTG ATACTG ATTCTG ATTCTG -TTACCTA ATTCTG ATTCTG
1 ATTCTG ATT--CTG ATTCTG ATTCTG ATTCTG ATT--CTG ATTCTG ATTCTG
* * * * * *
24275543 ATTCTG ATTTTG ATTCTG -TCACCTG ATTCTA ATTCTG ATTTTC ATTTTG
1 ATTCTG ATTCTG ATTCTG AT--TCTG ATTCTG ATTCTG ATTCTG ATTCTG
24275592 ATTCT- AGTTCTG AT
1 ATTCTG A-TTCTG AT
24275606 AATGTTTCTT
Statistics
Matches: 162, Mismatches: 24, Indels: 40
0.72 0.11 0.18
Matches are distributed among these distances:
5 12 0.07
6 125 0.77
7 16 0.10
8 9 0.06
ACGTcount: A:0.19, C:0.18, G:0.14, T:0.49
Consensus pattern (6 bp):
ATTCTG
Found at i:24275425 original size:25 final size:25
Alignment explanation
Indices: 24275394--24275486 Score: 150
Period size: 25 Copynumber: 3.7 Consensus size: 25
24275384 TTGCATTCAC
*
24275394 ATTCTGATTCTGATTCTGTTACCTG
1 ATTCTGATTCTGATTCTGTTACCTA
*
24275419 ATACTGATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTA
*
24275444 ATTCTAATTCTGATTCTGTTACCTA
1 ATTCTGATTCTGATTCTGTTACCTA
*
24275469 ATTCTGATTCTGGTTCTG
1 ATTCTGATTCTGATTCTG
24275487 ATTTTGATTC
Statistics
Matches: 62, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 62 1.00
ACGTcount: A:0.19, C:0.19, G:0.14, T:0.47
Consensus pattern (25 bp):
ATTCTGATTCTGATTCTGTTACCTA
Found at i:24275495 original size:62 final size:62
Alignment explanation
Indices: 24275416--24275582 Score: 271
Period size: 62 Copynumber: 2.7 Consensus size: 62
24275406 ATTCTGTTAC
* * *
24275416 CTGATACTGATTCTGATTCTGTTACCTAATTCTAATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTTTGATTCTGTTACCTGATTCTAATTCTGATTCTGTTACCTAATTCTGATT
* * *
24275478 CTGGTTCTGATTTTGATTCTGTTACCTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTTTGATTCTGTTACCTGATTCTAATTCTGATTCTGTTACCTAATTCTGATT
*
24275540 CTGATTCTGATTTTGATTCTGTCACCTGATTCTAATTCTGATT
1 CTGATTCTGATTTTGATTCTGTTACCTGATTCTAATTCTGATT
24275583 TTCATTTTGA
Statistics
Matches: 95, Mismatches: 10, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
62 95 1.00
ACGTcount: A:0.20, C:0.19, G:0.14, T:0.48
Consensus pattern (62 bp):
CTGATTCTGATTTTGATTCTGTTACCTGATTCTAATTCTGATTCTGTTACCTAATTCTGATT
Found at i:24275514 original size:25 final size:25
Alignment explanation
Indices: 24275484--24275548 Score: 103
Period size: 25 Copynumber: 2.6 Consensus size: 25
24275474 GATTCTGGTT
* *
24275484 CTGATTTTGATTCTGTTACCTGATA
1 CTGATTCTGATTCTGTTACCTAATA
*
24275509 CTGATTCTGATTCTGTTACCTAATT
1 CTGATTCTGATTCTGTTACCTAATA
24275534 CTGATTCTGATTCTG
1 CTGATTCTGATTCTG
24275549 ATTTTGATTC
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
25 37 1.00
ACGTcount: A:0.18, C:0.18, G:0.15, T:0.48
Consensus pattern (25 bp):
CTGATTCTGATTCTGTTACCTAATA
Found at i:24275582 original size:37 final size:37
Alignment explanation
Indices: 24275503--24275596 Score: 125
Period size: 37 Copynumber: 2.5 Consensus size: 37
24275493 ATTCTGTTAC
* * * *
24275503 CTGATACTGATTCTGATTCTGTTACCTAATTCTGATT
1 CTGATTCTGATTTTGATTCTGTCACCTAATTCTAATT
*
24275540 CTGATTCTGATTTTGATTCTGTCACCTGATTCTAATT
1 CTGATTCTGATTTTGATTCTGTCACCTAATTCTAATT
* *
24275577 CTGATTTTCATTTTGATTCT
1 CTGATTCTGATTTTGATTCT
24275597 AGTTCTGATA
Statistics
Matches: 50, Mismatches: 7, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
37 50 1.00
ACGTcount: A:0.19, C:0.18, G:0.13, T:0.50
Consensus pattern (37 bp):
CTGATTCTGATTTTGATTCTGTCACCTAATTCTAATT
Found at i:24277346 original size:21 final size:21
Alignment explanation
Indices: 24277317--24277385 Score: 59
Period size: 21 Copynumber: 3.1 Consensus size: 21
24277307 ATAGGAATTA
24277317 TGTGATCTGAACTCATTGAGT
1 TGTGATCTGAACTCATTGAGT
* ** *
24277338 TGTGGTCTGAGTTCA-TGATAT
1 TGTGATCTGAACTCATTGA-GT
24277359 ATGTGACATCTGAACTCATTGAGT
1 -TGTG--ATCTGAACTCATTGAGT
24277383 TGT
1 TGT
24277386 AGTCTGATTT
Statistics
Matches: 35, Mismatches: 8, Indels: 8
0.69 0.16 0.16
Matches are distributed among these distances:
20 3 0.09
21 13 0.37
22 4 0.11
23 3 0.09
24 9 0.26
25 3 0.09
ACGTcount: A:0.23, C:0.13, G:0.25, T:0.39
Consensus pattern (21 bp):
TGTGATCTGAACTCATTGAGT
Found at i:24277377 original size:45 final size:45
Alignment explanation
Indices: 24277321--24277408 Score: 149
Period size: 45 Copynumber: 2.0 Consensus size: 45
24277311 GAATTATGTG
*
24277321 ATCTGAACTCATTGAGTTGTGGTCTGAGTTCATGATATATGTGAC
1 ATCTGAACTCATTGAGTTGTAGTCTGAGTTCATGATATATGTGAC
* *
24277366 ATCTGAACTCATTGAGTTGTAGTCTGATTTCATGATGTATGTG
1 ATCTGAACTCATTGAGTTGTAGTCTGAGTTCATGATATATGTG
24277409 TTACATGTTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
45 40 1.00
ACGTcount: A:0.24, C:0.12, G:0.24, T:0.40
Consensus pattern (45 bp):
ATCTGAACTCATTGAGTTGTAGTCTGAGTTCATGATATATGTGAC
Found at i:24279787 original size:17 final size:17
Alignment explanation
Indices: 24279765--24279810 Score: 69
Period size: 15 Copynumber: 2.8 Consensus size: 17
24279755 GTTAAAATGG
*
24279765 TAATTATATAATTAAGT
1 TAATTATATAATTAACT
24279782 TAA-T-TATAATTAACT
1 TAATTATATAATTAACT
24279797 TAATTATATAATTA
1 TAATTATATAATTA
24279811 CCATTTTAAC
Statistics
Matches: 26, Mismatches: 1, Indels: 4
0.84 0.03 0.13
Matches are distributed among these distances:
15 13 0.50
16 2 0.08
17 11 0.42
ACGTcount: A:0.48, C:0.02, G:0.02, T:0.48
Consensus pattern (17 bp):
TAATTATATAATTAACT
Found at i:24299760 original size:40 final size:40
Alignment explanation
Indices: 24299677--24299896 Score: 268
Period size: 40 Copynumber: 5.5 Consensus size: 40
24299667 ACCCAAGTAT
** * *
24299677 CTTCGGGAT-TTAG-CCGGATATAACCACTCGCAC-AAGGC
1 CTTCGGG-TCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
24299715 CTTCGGGTCTTAGCCCGGATATGGTCACTAGCATAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
* *
24299755 CTTCGGGACTTAGCCCGGATATAGTCGCTAGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
24299795 CTTCGGGTCTTAGCCCGGATATAG-CAACTCGCACAAATGC
1 CTTCGGGTCTTAGCCCGGATATAGTC-ACTAGCACAAATGC
* * * *
24299835 CTTCGGATCTTAGTCCGGATATAGTCACTAGCATAAAAGC
1 CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
*
24299875 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGTCTTAGCCCGGATAT
24299897 CATTCGAATA
Statistics
Matches: 156, Mismatches: 21, Indels: 8
0.84 0.11 0.04
Matches are distributed among these distances:
37 1 0.01
38 11 0.07
39 16 0.10
40 127 0.81
41 1 0.01
ACGTcount: A:0.25, C:0.27, G:0.24, T:0.25
Consensus pattern (40 bp):
CTTCGGGTCTTAGCCCGGATATAGTCACTAGCACAAATGC
Found at i:24315261 original size:456 final size:456
Alignment explanation
Indices: 24314408--24315313 Score: 1812
Period size: 456 Copynumber: 2.0 Consensus size: 456
24314398 AAGGCTGAAA
24314408 TTATGTTAAACAACTTTTGCTAAGCGATTTTAAGCAAAAATGAATAAAAAAACTTAATCGATAAA
1 TTATGTTAAACAACTTTTGCTAAGCGATTTTAAGCAAAAATGAATAAAAAAACTTAATCGATAAA
24314473 AGTTGTTATTATTCATAACTATGTGTTAGAGTGAGAATTTGATGTTTCCATAGAAGGGAAAATGA
66 AGTTGTTATTATTCATAACTATGTGTTAGAGTGAGAATTTGATGTTTCCATAGAAGGGAAAATGA
24314538 TCAGTATGTCATAAAACATAAGAATAGGGGATGAATTTTAATTCCCGAGCTAAGGGCAAAAGTGT
131 TCAGTATGTCATAAAACATAAGAATAGGGGATGAATTTTAATTCCCGAGCTAAGGGCAAAAGTGT
24314603 AAAGATGCAAAAGTTTAGGGGCAAAATTGTAATTTTGTGAAAGTTTGAGTTAAGGACTGTTTTAA
196 AAAGATGCAAAAGTTTAGGGGCAAAATTGTAATTTTGTGAAAGTTTGAGTTAAGGACTGTTTTAA
24314668 ATAGTACATTAATTAAATAAGTAAAATATGATGTTTTAGATCTCGAAAAATGAGATTTGAATCTA
261 ATAGTACATTAATTAAATAAGTAAAATATGATGTTTTAGATCTCGAAAAATGAGATTTGAATCTA
24314733 GAATGGGAGAAAAATTGAAAATCGAGAAAATTGGTAAAATGGCCGTTTTAGTATCGAGGTAAGTT
326 GAATGGGAGAAAAATTGAAAATCGAGAAAATTGGTAAAATGGCCGTTTTAGTATCGAGGTAAGTT
24314798 CATATGTATAATAAGCATTAATTTATGCATGTTTCAATGTAAAATTGATATATTTACTATGATTG
391 CATATGTATAATAAGCATTAATTTATGCATGTTTCAATGTAAAATTGATATATTTACTATGATTG
24314863 G
456 G
24314864 TTATGTTAAACAACTTTTGCTAAGCGATTTTAAGCAAAAATGAATAAAAAAACTTAATCGATAAA
1 TTATGTTAAACAACTTTTGCTAAGCGATTTTAAGCAAAAATGAATAAAAAAACTTAATCGATAAA
24314929 AGTTGTTATTATTCATAACTATGTGTTAGAGTGAGAATTTGATGTTTCCATAGAAGGGAAAATGA
66 AGTTGTTATTATTCATAACTATGTGTTAGAGTGAGAATTTGATGTTTCCATAGAAGGGAAAATGA
24314994 TCAGTATGTCATAAAACATAAGAATAGGGGATGAATTTTAATTCCCGAGCTAAGGGCAAAAGTGT
131 TCAGTATGTCATAAAACATAAGAATAGGGGATGAATTTTAATTCCCGAGCTAAGGGCAAAAGTGT
24315059 AAAGATGCAAAAGTTTAGGGGCAAAATTGTAATTTTGTGAAAGTTTGAGTTAAGGACTGTTTTAA
196 AAAGATGCAAAAGTTTAGGGGCAAAATTGTAATTTTGTGAAAGTTTGAGTTAAGGACTGTTTTAA
24315124 ATAGTACATTAATTAAATAAGTAAAATATGATGTTTTAGATCTCGAAAAATGAGATTTGAATCTA
261 ATAGTACATTAATTAAATAAGTAAAATATGATGTTTTAGATCTCGAAAAATGAGATTTGAATCTA
24315189 GAATGGGAGAAAAATTGAAAATCGAGAAAATTGGTAAAATGGCCGTTTTAGTATCGAGGTAAGTT
326 GAATGGGAGAAAAATTGAAAATCGAGAAAATTGGTAAAATGGCCGTTTTAGTATCGAGGTAAGTT
24315254 CATATGTATAATAAGCATTAATTTATGCATGTTTCAATGTAAAATTGATATATTTACTAT
391 CATATGTATAATAAGCATTAATTTATGCATGTTTCAATGTAAAATTGATATATTTACTAT
24315314 TTGCCGAGGT
Statistics
Matches: 450, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
456 450 1.00
ACGTcount: A:0.40, C:0.08, G:0.19, T:0.33
Consensus pattern (456 bp):
TTATGTTAAACAACTTTTGCTAAGCGATTTTAAGCAAAAATGAATAAAAAAACTTAATCGATAAA
AGTTGTTATTATTCATAACTATGTGTTAGAGTGAGAATTTGATGTTTCCATAGAAGGGAAAATGA
TCAGTATGTCATAAAACATAAGAATAGGGGATGAATTTTAATTCCCGAGCTAAGGGCAAAAGTGT
AAAGATGCAAAAGTTTAGGGGCAAAATTGTAATTTTGTGAAAGTTTGAGTTAAGGACTGTTTTAA
ATAGTACATTAATTAAATAAGTAAAATATGATGTTTTAGATCTCGAAAAATGAGATTTGAATCTA
GAATGGGAGAAAAATTGAAAATCGAGAAAATTGGTAAAATGGCCGTTTTAGTATCGAGGTAAGTT
CATATGTATAATAAGCATTAATTTATGCATGTTTCAATGTAAAATTGATATATTTACTATGATTG
G
Found at i:24323049 original size:47 final size:47
Alignment explanation
Indices: 24322986--24323242 Score: 329
Period size: 47 Copynumber: 5.4 Consensus size: 47
24322976 CCCTTCGGGA
* * *
24322986 CTTATCACATTTATACACTTCCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
** *
24323033 CTTATCACATATATACACTTTCTTAATCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* * *
24323080 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
24323127 CTTATCACACATACACA-TGTTCACATTCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACT-TTCACATTCATCACATTGGCCATTCGGC
* *
24323174 CTTATCACGCATATATATACTTTCACATTCATCACATTGGCCACTCGGC
1 CTTATCA--CATATATACACTTTCACATTCATCACATTGGCCATTCGGC
* *
24323223 CCTATCACATATATATACTT
1 CTTATCACATATATACACTT
24323243 GTACATCAAT
Statistics
Matches: 188, Mismatches: 18, Indels: 8
0.88 0.08 0.04
Matches are distributed among these distances:
46 1 0.01
47 146 0.78
49 40 0.21
50 1 0.01
ACGTcount: A:0.28, C:0.30, G:0.09, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTCGGC
Found at i:24327905 original size:92 final size:91
Alignment explanation
Indices: 24327794--24328006 Score: 238
Period size: 92 Copynumber: 2.3 Consensus size: 91
24327784 GTGTCAATGC
* * *
24327794 CATGTCCCAGATAGGTCTTACACTAGCACTC-AACAA-G-CTGATGCCTTGTCCCAGACAGGTCT
1 CATGTCCCAGACATGTCTTACACTAGCACTCGAACAATGTC-GATG-CATGTCCCAGACAGGTCT
*
24327856 TACACTAGCT-T-GTATATGTCGAGGCTGATG
64 TACACTAGCTCTCATA-ATGT---GGCTGATG
* ** *
24327886 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTCGATGCATGTCCCAGACATGTCTT
1 CATGTCCCAGACATGTCTTACACTAGCACTCG-AACAATGTCGATGCATGTCCCAGACAGGTCTT
*
24327951 ACACTGGCTCTCATAATGTGGCTGATG
65 ACACTAGCTCTCATAATGTGGCTGATG
*
24327978 CATGTCCCAGACATGTCTTACACTGGCAC
1 CATGTCCCAGACATGTCTTACACTAGCAC
24328007 ACATACCACC
Statistics
Matches: 104, Mismatches: 11, Indels: 12
0.82 0.09 0.09
Matches are distributed among these distances:
92 63 0.61
94 28 0.27
95 10 0.10
96 3 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.28
Consensus pattern (91 bp):
CATGTCCCAGACATGTCTTACACTAGCACTCGAACAATGTCGATGCATGTCCCAGACAGGTCTTA
CACTAGCTCTCATAATGTGGCTGATG
Found at i:24327946 original size:46 final size:45
Alignment explanation
Indices: 24327794--24328001 Score: 187
Period size: 46 Copynumber: 4.5 Consensus size: 45
24327784 GTGTCAATGC
* * * *
24327794 CATGTCCCAGATAGGTCTTACACTAGCACTCA-ACA--AGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATA-ATGTGCTGATG
* * *
24327837 CCTTGTCCCAGACAGGTCTTACACTAGCT-T-GTATATGTCGAGGCTGATG
1 -CATGTCCCAGACATGTCTTACACTAGCTCTCATA-ATGT----GCTGATG
*
24327886 CATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGT-C-GATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AATGTGCTGATG
*
24327932 CATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTGGCTGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGT-GCTGATG
24327978 CATGTCCCAGACATGTCTTACACT
1 CATGTCCCAGACATGTCTTACACT
24328002 GGCACACATA
Statistics
Matches: 138, Mismatches: 11, Indels: 28
0.78 0.06 0.16
Matches are distributed among these distances:
43 8 0.06
44 26 0.19
45 1 0.01
46 62 0.45
47 1 0.01
48 26 0.19
49 8 0.06
52 5 0.04
53 1 0.01
ACGTcount: A:0.24, C:0.28, G:0.20, T:0.29
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTGCTGATG
Found at i:24328004 original size:46 final size:46
Alignment explanation
Indices: 24327830--24328001 Score: 192
Period size: 46 Copynumber: 3.7 Consensus size: 46
24327820 CACTCAACAA
* * *
24327830 GCTGATGCCTTGTCCCAGACAGGTCTTACACTAGCT-T-GTATATGTCGAG
1 GCTGATG-CATGTCCCAGACATGTCTTACACTAGCTCTCATA-ATGT---G
*
24327879 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGT-
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTC--AT-AATGTG
*
24327927 -C-GATGCATGTCCCAGACATGTCTTACACTGGCTCTCATAATGTG
1 GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTG
24327971 GCTGATGCATGTCCCAGACATGTCTTACACT
1 GCTGATGCATGTCCCAGACATGTCTTACACT
24328002 GGCACACATA
Statistics
Matches: 110, Mismatches: 5, Indels: 19
0.82 0.04 0.14
Matches are distributed among these distances:
43 5 0.05
44 1 0.01
45 1 0.01
46 62 0.56
47 1 0.01
48 26 0.24
49 8 0.07
52 5 0.05
53 1 0.01
ACGTcount: A:0.22, C:0.27, G:0.21, T:0.30
Consensus pattern (46 bp):
GCTGATGCATGTCCCAGACATGTCTTACACTAGCTCTCATAATGTG
Found at i:24333177 original size:43 final size:43
Alignment explanation
Indices: 24332988--24333178 Score: 213
Period size: 43 Copynumber: 4.4 Consensus size: 43
24332978 TATCCCAAAT
* ** * * *
24332988 ATGGTCTTACATGTCGTCACATATCGATGCCACTGTCCCAGAC
1 ATGGTCTTACACGTAATCAAATAACGATGCCAATGTCCCAGAC
* * * * *
24333031 AAGGTCTTACACGAAATCGAATAACGCTGCCAATGTCCTAGAC
1 ATGGTCTTACACGTAATCAAATAACGATGCCAATGTCCCAGAC
** *
24333074 ATGGTCTTACACGTAATTGAATAACCATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCAAATAACGATGCCAATGTCCCAGAC
* *
24333117 ATGGTCTTACACATAATCAAA-ATACAATGCCAATGTCCCAGAC
1 ATGGTCTTACACGTAATCAAATA-ACGATGCCAATGTCCCAGAC
*
24333160 ATGGTCTTACATGTAATCA
1 ATGGTCTTACACGTAATCA
24333179 CATCTCGGCA
Statistics
Matches: 124, Mismatches: 23, Indels: 2
0.83 0.15 0.01
Matches are distributed among these distances:
42 1 0.01
43 123 0.99
ACGTcount: A:0.32, C:0.26, G:0.16, T:0.26
Consensus pattern (43 bp):
ATGGTCTTACACGTAATCAAATAACGATGCCAATGTCCCAGAC
Found at i:24334291 original size:28 final size:28
Alignment explanation
Indices: 24334251--24334316 Score: 107
Period size: 28 Copynumber: 2.4 Consensus size: 28
24334241 TTAAACAATA
24334251 AAATTAGCTCACACAATTTTCACACATAT
1 AAATTA-CTCACACAATTTTCACACATAT
24334280 AAATTACTCACACAATTTTCACACATAT
1 AAATTACTCACACAATTTTCACACATAT
*
24334308 ATATT-CTCA
1 AAATTACTCA
24334317 TGCTATAAAC
Statistics
Matches: 36, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
27 4 0.11
28 26 0.72
29 6 0.17
ACGTcount: A:0.41, C:0.24, G:0.02, T:0.33
Consensus pattern (28 bp):
AAATTACTCACACAATTTTCACACATAT
Found at i:24334310 original size:30 final size:29
Alignment explanation
Indices: 24334251--24334308 Score: 109
Period size: 28 Copynumber: 2.0 Consensus size: 29
24334241 TTAAACAATA
24334251 AAATTAGCTCACACAATTTTCACACATAT
1 AAATTAGCTCACACAATTTTCACACATAT
24334280 AAATTA-CTCACACAATTTTCACACATAT
1 AAATTAGCTCACACAATTTTCACACATAT
24334308 A
1 A
24334309 TATTCTCATG
Statistics
Matches: 29, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
28 23 0.79
29 6 0.21
ACGTcount: A:0.43, C:0.24, G:0.02, T:0.31
Consensus pattern (29 bp):
AAATTAGCTCACACAATTTTCACACATAT
Found at i:24336646 original size:21 final size:20
Alignment explanation
Indices: 24336608--24336646 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
24336598 TAAAAGTTAA
* *
24336608 TTTAAATTAAAATCTTAAAT
1 TTTAAATAAAAATATTAAAT
24336628 TTTAATATAAAAATATTAA
1 TTTAA-ATAAAAATATTAA
24336647 TGTATCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.54, C:0.03, G:0.00, T:0.44
Consensus pattern (20 bp):
TTTAAATAAAAATATTAAAT
Found at i:24340632 original size:19 final size:20
Alignment explanation
Indices: 24340581--24340638 Score: 59
Period size: 20 Copynumber: 2.9 Consensus size: 20
24340571 GACAAATTCG
24340581 ATTAAACAACAAA-TAAATAA
1 ATTAAA-AACAAATTAAATAA
*
24340601 AATAATAAA-AAATTAAA-AA
1 ATTAA-AAACAAATTAAATAA
24340620 ATTAAAAACAAATCTAAAT
1 ATTAAAAACAAAT-TAAAT
24340639 GAATAAGTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 9
0.74 0.05 0.21
Matches are distributed among these distances:
18 3 0.10
19 13 0.42
20 14 0.45
21 1 0.03
ACGTcount: A:0.71, C:0.07, G:0.00, T:0.22
Consensus pattern (20 bp):
ATTAAAAACAAATTAAATAA
Found at i:24349366 original size:30 final size:30
Alignment explanation
Indices: 24349332--24349392 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 30
24349322 TCCTTAACTC
24349332 AAACTTTGGAAAAATTACAATTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
* * * * *
24349362 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTGGAAAAATTACAATTTTGCCCCT
24349392 A
1 A
24349393 GGCTCGGGAA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
30 26 1.00
ACGTcount: A:0.31, C:0.23, G:0.08, T:0.38
Consensus pattern (30 bp):
AAACTTTGGAAAAATTACAATTTTGCCCCT
Found at i:24355595 original size:11 final size:11
Alignment explanation
Indices: 24355579--24355610 Score: 64
Period size: 11 Copynumber: 2.9 Consensus size: 11
24355569 TTTTGTCTCA
24355579 CGCTACAGTAT
1 CGCTACAGTAT
24355590 CGCTACAGTAT
1 CGCTACAGTAT
24355601 CGCTACAGTA
1 CGCTACAGTA
24355611 GATAATCTCA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 21 1.00
ACGTcount: A:0.28, C:0.28, G:0.19, T:0.25
Consensus pattern (11 bp):
CGCTACAGTAT
Found at i:24356997 original size:17 final size:18
Alignment explanation
Indices: 24356975--24357010 Score: 56
Period size: 17 Copynumber: 2.1 Consensus size: 18
24356965 TTAATATTTT
24356975 TTAATAAATTAATA-GCA
1 TTAATAAATTAATATGCA
*
24356992 TTAATAATTTAATATGCA
1 TTAATAAATTAATATGCA
24357010 T
1 T
24357011 ATATTTGATT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
17 13 0.76
18 4 0.24
ACGTcount: A:0.47, C:0.06, G:0.06, T:0.42
Consensus pattern (18 bp):
TTAATAAATTAATATGCA
Found at i:24367254 original size:39 final size:39
Alignment explanation
Indices: 24367211--24367333 Score: 174
Period size: 39 Copynumber: 3.1 Consensus size: 39
24367201 TGCATGTTTT
* * *
24367211 GGTTGGATTAGCTTTTATTAGCTTCTTTCTGGCGTGTTC
1 GGTTGGATTAGCTCTTATGAGCTTCTGTCTGGCGTGTTC
*
24367250 GGTTGGATTAGCTCTTATGAGCTTCTGTCTGGCGTATTTC
1 GGTTGGATTAGCTCTTATGAGCTTCTGTCTGGCGT-GTTC
** *
24367290 AATTGGATTAGCTCTTATGAGCTTCTGTCTGGTGTGTTC
1 GGTTGGATTAGCTCTTATGAGCTTCTGTCTGGCGTGTTC
24367329 GGTTG
1 GGTTG
24367334 ATTTGACAAT
Statistics
Matches: 73, Mismatches: 10, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
39 38 0.52
40 35 0.48
ACGTcount: A:0.12, C:0.15, G:0.28, T:0.45
Consensus pattern (39 bp):
GGTTGGATTAGCTCTTATGAGCTTCTGTCTGGCGTGTTC
Found at i:24367306 original size:40 final size:39
Alignment explanation
Indices: 24367213--24367328 Score: 160
Period size: 40 Copynumber: 2.9 Consensus size: 39
24367203 CATGTTTTGG
* * * **
24367213 TTGGATTAGCTTTTATTAGCTTCTTTCTGGCGTGTTCGG
1 TTGGATTAGCTCTTATGAGCTTCTGTCTGGCGTGTTCAA
*
24367252 TTGGATTAGCTCTTATGAGCTTCTGTCTGGCGTATTTCAA
1 TTGGATTAGCTCTTATGAGCTTCTGTCTGGCGT-GTTCAA
*
24367292 TTGGATTAGCTCTTATGAGCTTCTGTCTGGTGTGTTC
1 TTGGATTAGCTCTTATGAGCTTCTGTCTGGCGTGTTC
24367329 GGTTGATTTG
Statistics
Matches: 68, Mismatches: 8, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
39 33 0.49
40 35 0.51
ACGTcount: A:0.13, C:0.16, G:0.25, T:0.46
Consensus pattern (39 bp):
TTGGATTAGCTCTTATGAGCTTCTGTCTGGCGTGTTCAA
Found at i:24376099 original size:25 final size:25
Alignment explanation
Indices: 24376051--24376100 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
24376041 CTACACTAAT
*
24376051 TAGAATTTAAGTGGAAAACTAAAAA
1 TAGAATTTAAGTGGAAAACAAAAAA
*
24376076 TAGAATTTAACTTGGAAAA-AAAAAA
1 TAGAATTTAA-GTGGAAAACAAAAAA
24376101 CTAAAAATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.58, C:0.04, G:0.14, T:0.24
Consensus pattern (25 bp):
TAGAATTTAAGTGGAAAACAAAAAA
Found at i:24376100 original size:26 final size:25
Alignment explanation
Indices: 24376051--24376100 Score: 64
Period size: 26 Copynumber: 2.0 Consensus size: 25
24376041 CTACACTAAT
**
24376051 TAGAATTTAAGTGGAAAACTAAAAA
1 TAGAATTTAAGTGGAAAAAAAAAAA
*
24376076 TAGAATTTAACTTGGAAAAAAAAAA
1 TAGAATTTAA-GTGGAAAAAAAAAA
24376101 CTAAAAATTG
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
25 10 0.48
26 11 0.52
ACGTcount: A:0.58, C:0.04, G:0.14, T:0.24
Consensus pattern (25 bp):
TAGAATTTAAGTGGAAAAAAAAAAA
Found at i:24377191 original size:31 final size:31
Alignment explanation
Indices: 24377124--24377191 Score: 93
Period size: 31 Copynumber: 2.2 Consensus size: 31
24377114 CAGTTATTGA
*
24377124 ATTATTTAAAAAATTTTATTTAAATTATTAG
1 ATTATTTAAAAAATTTTATTTAAATTATGAG
**
24377155 ATTATTTAAAAGTTTTTATTTAAATTACTGAG
1 ATTATTTAAAAAATTTTATTTAAATTA-TGAG
24377187 -TTATT
1 ATTATT
24377192 ATTATTTTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
31 30 0.91
32 3 0.09
ACGTcount: A:0.40, C:0.01, G:0.06, T:0.53
Consensus pattern (31 bp):
ATTATTTAAAAAATTTTATTTAAATTATGAG
Found at i:24377877 original size:3 final size:3
Alignment explanation
Indices: 24377869--24377907 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
24377859 GGCTGGGAGT
24377869 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
24377908 ACAACCCCCC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
TAA
Found at i:24381094 original size:27 final size:28
Alignment explanation
Indices: 24381064--24381122 Score: 111
Period size: 27 Copynumber: 2.1 Consensus size: 28
24381054 TATTGTAGAA
24381064 AAAATTCAAAATATGATTTACTCACAC-
1 AAAATTCAAAATATGATTTACTCACACT
24381091 AAAATTCAAAATATGATTTACTCACACT
1 AAAATTCAAAATATGATTTACTCACACT
24381119 AAAA
1 AAAA
24381123 GTTAAAAGTA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
27 27 0.87
28 4 0.13
ACGTcount: A:0.51, C:0.17, G:0.03, T:0.29
Consensus pattern (28 bp):
AAAATTCAAAATATGATTTACTCACACT
Found at i:24381349 original size:6 final size:6
Alignment explanation
Indices: 24381338--24381389 Score: 95
Period size: 6 Copynumber: 8.7 Consensus size: 6
24381328 AATATTTAAG
*
24381338 TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA CAATTA TAATTA
1 TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA TAATTA
24381386 TAAT
1 TAAT
24381390 ACTATATTAA
Statistics
Matches: 44, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
6 44 1.00
ACGTcount: A:0.50, C:0.02, G:0.00, T:0.48
Consensus pattern (6 bp):
TAATTA
Found at i:24381402 original size:18 final size:19
Alignment explanation
Indices: 24381340--24381402 Score: 73
Period size: 18 Copynumber: 3.5 Consensus size: 19
24381330 TATTTAAGTA
24381340 ATTATAATTATAAT--TAT
1 ATTATAATTATAATACTAT
24381357 AATTATAATTATAATTAC-A-
1 -ATTATAATTATAA-TACTAT
24381376 ATTATAATTATAATACTAT
1 ATTATAATTATAATACTAT
24381395 ATTA-AATT
1 ATTATAATT
24381403 TAAAATAATA
Statistics
Matches: 40, Mismatches: 0, Indels: 10
0.80 0.00 0.20
Matches are distributed among these distances:
17 3 0.08
18 31 0.77
19 5 0.12
20 1 0.03
ACGTcount: A:0.49, C:0.03, G:0.00, T:0.48
Consensus pattern (19 bp):
ATTATAATTATAATACTAT
Found at i:24381567 original size:14 final size:14
Alignment explanation
Indices: 24381548--24381577 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
24381538 AAATATTTCC
24381548 ATATTAAAGAATGT
1 ATATTAAAGAATGT
24381562 ATATTAAAGAATGT
1 ATATTAAAGAATGT
24381576 AT
1 AT
24381578 TCGTGGCACA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.13, T:0.37
Consensus pattern (14 bp):
ATATTAAAGAATGT
Found at i:24394747 original size:3 final size:3
Alignment explanation
Indices: 24394732--24394780 Score: 57
Period size: 3 Copynumber: 16.7 Consensus size: 3
24394722 ATATATTAGT
* *
24394732 TAA TAA TAT TAA TAA TAA TAA TACA TTA TAA TAA T-A TAA T-A TAA
1 TAA TAA TAA TAA TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA
24394776 TAA TA
1 TAA TA
24394781 TTTAATTCAT
Statistics
Matches: 39, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
2 4 0.10
3 33 0.85
4 2 0.05
ACGTcount: A:0.59, C:0.02, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:24394781 original size:13 final size:13
Alignment explanation
Indices: 24394732--24394781 Score: 64
Period size: 13 Copynumber: 3.7 Consensus size: 13
24394722 ATATATTAGT
24394732 TAATAATATTAATAA
1 TAATAATA-TAAT-A
* *
24394747 TAATAATACATTA
1 TAATAATATAATA
24394760 TAATAATATAATA
1 TAATAATATAATA
24394773 TAATAATAT
1 TAATAATAT
24394782 TTAATTCATA
Statistics
Matches: 31, Mismatches: 4, Indels: 2
0.84 0.11 0.05
Matches are distributed among these distances:
13 21 0.68
14 2 0.06
15 8 0.26
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (13 bp):
TAATAATATAATA
Found at i:24403968 original size:45 final size:45
Alignment explanation
Indices: 24403904--24403995 Score: 175
Period size: 45 Copynumber: 2.0 Consensus size: 45
24403894 GCCTTGCAGG
*
24403904 CTCGCTCAACAAGTACCACAAATTCTTTATTCTCAAGTATGCCAA
1 CTCGCTCAACAAGTACCACAAATTCTTTAATCTCAAGTATGCCAA
24403949 CTCGCTCAACAAGTACCACAAATTCTTTAATCTCAAGTATGCCAA
1 CTCGCTCAACAAGTACCACAAATTCTTTAATCTCAAGTATGCCAA
24403994 CT
1 CT
24403996 AACAGTTTGA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
45 46 1.00
ACGTcount: A:0.34, C:0.29, G:0.09, T:0.28
Consensus pattern (45 bp):
CTCGCTCAACAAGTACCACAAATTCTTTAATCTCAAGTATGCCAA
Found at i:24406802 original size:43 final size:43
Alignment explanation
Indices: 24406718--24406803 Score: 99
Period size: 43 Copynumber: 2.0 Consensus size: 43
24406708 AAATCGTACA
*
24406718 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCATATATCG
1 ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCACATATCG
24406761 ATGCC-ACTGTCCCAGACAG-GGTCTTAC-TCGTCAA-CACATATCG
1 ATGCCAAC-GTCCCAGAC-GTGGTCTTACAT-GT-AACCACATATCG
24406804 GAATTACAAA
Statistics
Matches: 38, Mismatches: 1, Indels: 8
0.81 0.02 0.17
Matches are distributed among these distances:
42 3 0.08
43 32 0.84
44 3 0.08
ACGTcount: A:0.27, C:0.30, G:0.19, T:0.24
Consensus pattern (43 bp):
ATGCCAACGTCCCAGACGTGGTCTTACATGTAACCACATATCG
Found at i:24409468 original size:10 final size:11
Alignment explanation
Indices: 24409452--24409493 Score: 50
Period size: 11 Copynumber: 3.8 Consensus size: 11
24409442 ATCCTTATAC
24409452 CTAATTAACCT
1 CTAATTAACCT
*
24409463 -TAATTAAACT
1 CTAATTAACCT
*
24409473 CTAATTAACCA
1 CTAATTAACCT
24409484 CTCAATTAAC
1 CT-AATTAAC
24409494 TTCGTAAATA
Statistics
Matches: 26, Mismatches: 3, Indels: 3
0.81 0.09 0.09
Matches are distributed among these distances:
10 9 0.35
11 10 0.38
12 7 0.27
ACGTcount: A:0.43, C:0.24, G:0.00, T:0.33
Consensus pattern (11 bp):
CTAATTAACCT
Found at i:24413961 original size:46 final size:48
Alignment explanation
Indices: 24413857--24413976 Score: 145
Period size: 46 Copynumber: 2.5 Consensus size: 48
24413847 TGTCTTCGAC
** * *
24413857 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* * *
24413905 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAG-C-TATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
* *
24413951 ATGGATTTACATGGCTCATTTCTGTC
1 ATGGACTTACATGGCTCATTCCTGTC
24413977 CTATCCTGTC
Statistics
Matches: 62, Mismatches: 10, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
46 33 0.53
47 1 0.02
48 28 0.45
ACGTcount: A:0.27, C:0.21, G:0.15, T:0.38
Consensus pattern (48 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCATATATATATAAT
Found at i:24414351 original size:30 final size:30
Alignment explanation
Indices: 24414317--24414377 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
24414307 TCCTTTACTC
*
24414317 AAAC-TTTGCAAAAATTACATTTTTGCCCCT
1 AAACTTTTGC-AAAATTACACTTTTGCCCCT
* *
24414347 AAACTTTTGCATATTTACACTTTTGCCCCT
1 AAACTTTTGCAAAATTACACTTTTGCCCCT
24414377 A
1 A
24414378 GGCTCGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
30 22 0.81
31 5 0.19
ACGTcount: A:0.30, C:0.25, G:0.07, T:0.39
Consensus pattern (30 bp):
AAACTTTTGCAAAATTACACTTTTGCCCCT
Found at i:24417507 original size:29 final size:29
Alignment explanation
Indices: 24417475--24417687 Score: 238
Period size: 29 Copynumber: 7.4 Consensus size: 29
24417465 TTTAGTTTTC
*
24417475 GCCACGAAGGCATCCTTTTAACAGAG-TA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * * * *
24417503 TGCCAC-AAGACGTTCC-CTTAATAGAGATG
1 -GCCACAAAGGC-ATCCTTTTAACAGAGATA
* *
24417532 GCCACAAATGCATCCTTTTAACAAAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* *
24417561 GCCACAAATGCATCCATTTAACAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
*
24417590 GCCACAAAGGCAT-CTTTTAATAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
*
24417618 GCCACAAATGCAT-CTTTTAACAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
* * *
24417646 GCCACAAAGGCATTCATTTAACTGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATA
24417675 GCCACAAAGGCAT
1 GCCACAAAGGCAT
24417688 GTAATGAAGA
Statistics
Matches: 157, Mismatches: 22, Indels: 10
0.83 0.12 0.05
Matches are distributed among these distances:
28 71 0.45
29 86 0.55
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (29 bp):
GCCACAAAGGCATCCTTTTAACAGAGATA
Found at i:24417548 original size:57 final size:58
Alignment explanation
Indices: 24417475--24417687 Score: 229
Period size: 57 Copynumber: 3.7 Consensus size: 58
24417465 TTTAGTTTTC
* * * *
24417475 GCCACGAAGGCATCCTTTTAACAGAG-TATGCCACAAGACG-TTCC-CTTAATAGAGATG
1 GCCACAAAGGCATCCTTTTAACAGAGATA-GCCACAA-ACGCATCCACTTAACAGAGATA
* * * *
24417532 GCCACAAATGCATCCTTTTAACAAAGATAGCCACAAATGCATCCATTTAACAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATAGCCACAAACGCATCCACTTAACAGAGATA
* * **
24417590 GCCACAAAGGCAT-CTTTTAATAGAGATAGCCACAAATGCAT-CTTTTAACAGAGATA
1 GCCACAAAGGCATCCTTTTAACAGAGATAGCCACAAACGCATCCACTTAACAGAGATA
* * * *
24417646 GCCACAAAGGCATTCATTTAACTGAGATAGCCACAAAGGCAT
1 GCCACAAAGGCATCCTTTTAACAGAGATAGCCACAAACGCAT
24417688 GTAATGAAGA
Statistics
Matches: 136, Mismatches: 16, Indels: 8
0.85 0.10 0.05
Matches are distributed among these distances:
56 29 0.21
57 83 0.61
58 24 0.18
ACGTcount: A:0.38, C:0.23, G:0.17, T:0.23
Consensus pattern (58 bp):
GCCACAAAGGCATCCTTTTAACAGAGATAGCCACAAACGCATCCACTTAACAGAGATA
Found at i:24417673 original size:85 final size:82
Alignment explanation
Indices: 24417475--24417737 Score: 280
Period size: 86 Copynumber: 3.1 Consensus size: 82
24417465 TTTAGTTTTC
* * * ** *
24417475 GCCACGAAGGCATCCTTTTAACAGAG-TATGCCACAAGACGTTCCCTTAATAGAGATGGCCACAA
1 GCCACAAAGGCATCCATTTAACAGAGATA-GCCACAA-A-G-GCATTTAATAGAGATAGCCACAA
*
24417539 ATGCATCCTTTTAACAAAGATA
62 ATGCAT-CTTTTAACAGAGATA
*
24417561 GCCACAAATGCATCCATTTAACAGAGATAGCCACAAAGGCATCTTTTAATAGAGATAGCCACAAA
1 GCCACAAAGGCATCCATTTAACAGAGATAGCCACAAAGGCA---TTTAATAGAGATAGCCACAAA
24417626 TGCATCTTTTAACAGAGATA
63 TGCATCTTTTAACAGAGATA
* * * *
24417646 GCCACAAAGGCATTCATTTAACTGAGATAGCCACAAAGGCATGTAAT-GAAGATAGCCACAAA-A
1 GCCACAAAGGCATCCATTTAACAGAGATAGCCACAAAGGCATTTAATAG-AGATAGCCACAAATG
* *
24417709 CTATTCATTTAACAGGGATA
65 C-A-TCTTTTAACAGAGATA
24417729 GCCACAAAG
1 GCCACAAAG
24417738 ATTTACTTAT
Statistics
Matches: 155, Mismatches: 15, Indels: 17
0.83 0.08 0.09
Matches are distributed among these distances:
81 2 0.01
82 19 0.12
83 24 0.15
84 1 0.01
85 53 0.34
86 54 0.35
87 2 0.01
ACGTcount: A:0.39, C:0.22, G:0.17, T:0.22
Consensus pattern (82 bp):
GCCACAAAGGCATCCATTTAACAGAGATAGCCACAAAGGCATTTAATAGAGATAGCCACAAATGC
ATCTTTTAACAGAGATA
Found at i:24419024 original size:15 final size:15
Alignment explanation
Indices: 24419004--24419034 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
24418994 GCCTCATATC
*
24419004 TCATAACCATCCTTT
1 TCATAACCATCATTT
24419019 TCATAACCATCATTT
1 TCATAACCATCATTT
24419034 T
1 T
24419035 TGTTTCATTT
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:0.29, C:0.29, G:0.00, T:0.42
Consensus pattern (15 bp):
TCATAACCATCATTT
Done.