Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001317.1 Hibiscus syriacus cultivar Beakdansim tig00002569_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 86772
ACGTcount: A:0.33, C:0.19, G:0.15, T:0.33
Found at i:4884 original size:12 final size:12
Alignment explanation
Indices: 4851--4915 Score: 62
Period size: 12 Copynumber: 5.4 Consensus size: 12
4841 ACGAAAATAT
4851 CAGAAATCAAAA
1 CAGAAATCAAAA
4863 CA-AAATTCAAAA
1 CAGAAA-TCAAAA
*
4875 CAGATATCAAAA
1 CAGAAATCAAAA
* *
4887 CAG-AATCCATAT
1 CAGAAAT-CAAAA
*
4899 CAGAAATCAGAA
1 CAGAAATCAAAA
4911 CAGAA
1 CAGAA
4916 TTCAGGTCAT
Statistics
Matches: 43, Mismatches: 6, Indels: 8
0.75 0.11 0.14
Matches are distributed among these distances:
11 5 0.12
12 33 0.77
13 5 0.12
ACGTcount: A:0.58, C:0.18, G:0.09, T:0.14
Consensus pattern (12 bp):
CAGAAATCAAAA
Found at i:4955 original size:24 final size:24
Alignment explanation
Indices: 4850--4955 Score: 90
Period size: 24 Copynumber: 4.4 Consensus size: 24
4840 AACGAAAATA
*
4850 TCAGAAATCAAAACAAAATTCAAA
1 TCAGAAATCAAAACAAAATTCAAG
* * * *
4874 ACAGATATCAAAACAGAATCCATA-
1 TCAGAAATCAAAACAAAATTCA-AG
* * *
4898 TCAGAAATCAGAACAGAATTCAGG
1 TCAGAAATCAAAACAAAATTCAAG
*
4922 TCATG-TATCAAAACAAAATTCAAG
1 TCA-GAAATCAAAACAAAATTCAAG
*
4946 TCGGAAATCA
1 TCAGAAATCA
4956 GATAAAATAT
Statistics
Matches: 63, Mismatches: 15, Indels: 8
0.73 0.17 0.09
Matches are distributed among these distances:
23 1 0.02
24 60 0.95
25 2 0.03
ACGTcount: A:0.52, C:0.18, G:0.11, T:0.19
Consensus pattern (24 bp):
TCAGAAATCAAAACAAAATTCAAG
Found at i:6546 original size:17 final size:18
Alignment explanation
Indices: 6524--6560 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
6514 TCTTATGCAC
6524 ATCAATA-GT-TTTATCAG
1 ATCAATATGTCTTT-TCAG
6541 ATCAATATGTCTTTTCAG
1 ATCAATATGTCTTTTCAG
6559 AT
1 AT
6561 TTATTAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 8 0.44
19 3 0.17
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ATCAATATGTCTTTTCAG
Found at i:7488 original size:81 final size:81
Alignment explanation
Indices: 7371--7651 Score: 308
Period size: 81 Copynumber: 3.5 Consensus size: 81
7361 ACAGTCGACC
* *
7371 ATTTTACACAAATATCACCCTAACATAAATTAATTACAAAATTAGCCACCTTCTGTAAATATTTA
1 ATTTTACACAAATATCACCCAAACAGAAATTAATTACAAAATTAGCCACCTTCTGTAAATATTTA
7436 CGAAACTAACACCCAA
66 CGAAACTAACACCCAA
* * * *
7452 ATTTTACACAAATAGCACCCAAACAGAAATTAATTACAAAATTA-ACACC--C---AAACGATGC
1 ATTTTACACAAATATCACCCAAACAGAAATTAATTACAAAATTAGCCACCTTCTGTAAA-TAT-T
** ******* *
7511 T-C-ACTCTCGGGGTGAT
64 TACGAAACTAACACCCAA
* * * *
7527 ATTTTATACAAATATTACCCTAACATAAATTAATTACAAAATTAGCCACCTTCTGTAAATATTTA
1 ATTTTACACAAATATCACCCAAACAGAAATTAATTACAAAATTAGCCACCTTCTGTAAATATTTA
7592 CGAAACTAACACCCAA
66 CGAAACTAACACCCAA
7608 ATTTTACACAAATATCACCCAAACAGAAATTAATTACAAAATTA
1 ATTTTACACAAATATCACCCAAACAGAAATTAATTACAAAATTA
7652 ACACCCCAAA
Statistics
Matches: 152, Mismatches: 38, Indels: 20
0.72 0.18 0.10
Matches are distributed among these distances:
75 46 0.30
76 7 0.05
77 1 0.01
78 2 0.01
79 1 0.01
80 7 0.05
81 88 0.58
ACGTcount: A:0.45, C:0.22, G:0.06, T:0.27
Consensus pattern (81 bp):
ATTTTACACAAATATCACCCAAACAGAAATTAATTACAAAATTAGCCACCTTCTGTAAATATTTA
CGAAACTAACACCCAA
Found at i:7655 original size:156 final size:157
Alignment explanation
Indices: 7371--7679 Score: 584
Period size: 156 Copynumber: 2.0 Consensus size: 157
7361 ACAGTCGACC
7371 ATTTTACACAAATATCACCCTAACATAAATTAATTACAAAATTAGCCACCTTCTGTAAATATTTA
1 ATTTTACACAAATATCACCCTAACATAAATTAATTACAAAATTAGCCACCTTCTGTAAATATTTA
7436 CGAAACTAACACCCAAATTTTACACAAATAGCACCCAAACAGAAATTAATTACAAAATTAACA-C
66 CGAAACTAACACCCAAATTTTACACAAATAGCACCCAAACAGAAATTAATTACAAAATTAACACC
7500 CCAAACGATGCTCACTCTCGGGGTGAT
131 CCAAACGATGCTCACTCTCGGGGTGAT
* *
7527 ATTTTATACAAATATTACCCTAACATAAATTAATTACAAAATTAGCCACCTTCTGTAAATATTTA
1 ATTTTACACAAATATCACCCTAACATAAATTAATTACAAAATTAGCCACCTTCTGTAAATATTTA
*
7592 CGAAACTAACACCCAAATTTTACACAAATATCACCCAAACAGAAATTAATTACAAAATTAACACC
66 CGAAACTAACACCCAAATTTTACACAAATAGCACCCAAACAGAAATTAATTACAAAATTAACACC
7657 CCAAACGATGCTCACTCTCGGGG
131 CCAAACGATGCTCACTCTCGGGG
7680 GTGGCGCATG
Statistics
Matches: 149, Mismatches: 3, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
156 125 0.84
157 24 0.16
ACGTcount: A:0.43, C:0.24, G:0.07, T:0.26
Consensus pattern (157 bp):
ATTTTACACAAATATCACCCTAACATAAATTAATTACAAAATTAGCCACCTTCTGTAAATATTTA
CGAAACTAACACCCAAATTTTACACAAATAGCACCCAAACAGAAATTAATTACAAAATTAACACC
CCAAACGATGCTCACTCTCGGGGTGAT
Found at i:11368 original size:17 final size:18
Alignment explanation
Indices: 11346--11382 Score: 51
Period size: 18 Copynumber: 2.1 Consensus size: 18
11336 TCTTATGCAC
11346 ATCAATA-GT-TTTATCAG
1 ATCAATATGTCTTT-TCAG
11363 ATCAATATGTCTTTTCAG
1 ATCAATATGTCTTTTCAG
11381 AT
1 AT
11383 TTATTAATCC
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
17 7 0.39
18 8 0.44
19 3 0.17
ACGTcount: A:0.32, C:0.14, G:0.11, T:0.43
Consensus pattern (18 bp):
ATCAATATGTCTTTTCAG
Found at i:12199 original size:17 final size:17
Alignment explanation
Indices: 12177--12216 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
12167 GGTCAACTGT
* *
12177 GGTCAACGCCGCTCAAC
1 GGTCAACACAGCTCAAC
*
12194 GGTCAACACAGGTCAAC
1 GGTCAACACAGCTCAAC
12211 GGTCAA
1 GGTCAA
12217 TAGTCGATCA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.30, C:0.33, G:0.25, T:0.12
Consensus pattern (17 bp):
GGTCAACACAGCTCAAC
Found at i:13527 original size:55 final size:55
Alignment explanation
Indices: 13320--13515 Score: 268
Period size: 55 Copynumber: 3.6 Consensus size: 55
13310 TTTATTAAGA
* * * * *
13320 TGCACACGTAGTGCCTATACGG-TAGTTCATCCACTCATGATGAATTCCGTGATTT
1 TGCACACATAGTGCATGTACGGTTA-TTCATCAACTCATGATGAATTCCGTGGTTT
* * *
13375 TACACACATCGTGCATGTACGATTATTCATCAACTCATGATGAATTCCGTGGTTT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGTTT
* *
13430 TGCACACATAGTGCATGTATGGTTATTCATCAACTCATGATGAATTCTGTGGTTT
1 TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGTTT
* *
13485 TGCACACATAGTACCTGTACGGTTATTCATC
1 TGCACACATAGTGCATGTACGGTTATTCATC
13516 CACGTAGGAT
Statistics
Matches: 124, Mismatches: 16, Indels: 2
0.87 0.11 0.01
Matches are distributed among these distances:
55 122 0.98
56 2 0.02
ACGTcount: A:0.26, C:0.21, G:0.18, T:0.35
Consensus pattern (55 bp):
TGCACACATAGTGCATGTACGGTTATTCATCAACTCATGATGAATTCCGTGGTTT
Found at i:16612 original size:2 final size:2
Alignment explanation
Indices: 16607--16642 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
16597 AAAATATTTA
16607 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
16643 TTGAAATACA
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:22062 original size:23 final size:23
Alignment explanation
Indices: 22036--22083 Score: 60
Period size: 23 Copynumber: 2.1 Consensus size: 23
22026 ATAAAGTACA
*
22036 ATAACATACTAGGTAGCGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
** *
22059 ATAATGTAATAGGTAGTGCTTAT
1 ATAACATAATAGGTAGCGCTTAT
22082 AT
1 AT
22084 TTACCTAATT
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
23 21 1.00
ACGTcount: A:0.35, C:0.10, G:0.19, T:0.35
Consensus pattern (23 bp):
ATAACATAATAGGTAGCGCTTAT
Found at i:22532 original size:23 final size:23
Alignment explanation
Indices: 22506--22568 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
22496 ATATAACTAC
22506 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
22529 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
22552 TACCTATTACATCATAT
1 TACCTATTACATTATAT
22569 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:22965 original size:23 final size:23
Alignment explanation
Indices: 22939--23001 Score: 99
Period size: 23 Copynumber: 2.7 Consensus size: 23
22929 ATATAACCAC
22939 TACCTATTACATTATATAAACGA
1 TACCTATTACATTATATAAACGA
* *
22962 TACCTATTACATTATATAAGCGC
1 TACCTATTACATTATATAAACGA
*
22985 TACCTATTACATCATAT
1 TACCTATTACATTATAT
23002 TTTTACCTAT
Statistics
Matches: 37, Mismatches: 3, Indels: 0
0.93 0.08 0.00
Matches are distributed among these distances:
23 37 1.00
ACGTcount: A:0.38, C:0.21, G:0.05, T:0.37
Consensus pattern (23 bp):
TACCTATTACATTATATAAACGA
Found at i:22970 original size:433 final size:433
Alignment explanation
Indices: 22149--23211 Score: 1994
Period size: 433 Copynumber: 2.5 Consensus size: 433
22139 CTATTATATA
22149 TATATATGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTT
1 TATAT-TGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTT
22214 ATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
65 ATGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
*
22279 TGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAA-T
130 TGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAACA
*
22343 A-A-T-AATATATATCGTAACGTAAAAAATAAATCATTAGACGCCTATAATTACTAAATTAAAAT
195 ACATTAAATATATATCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAAAAT
*
22405 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGGACACT
260 CTTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGAACACT
*
22470 TTTATAAAAAGGATAAACACTTTACAATATAACTACTACCTATTACATTATATAAACGATACCTA
325 TTTATAAAAAGGATAAACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTA
22535 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTAT
390 TTACATTATATAAGCGCTACCTATTACATCATATTTTTACCTAT
22579 TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTA
1 TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTA
22644 TGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTT
66 TGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTT
22709 GCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAACAA
131 GCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAACAA
22774 CATTAAATATATATCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAAAATC
196 CATTAAATATATATCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAAAATC
*
22839 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCCACAGTGAAAAAAGTATGAACACTT
261 TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGAACACTT
*
22904 TTATAAAAAGGATAGACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
326 TTATAAAAAGGATAAACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
22969 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTAT
391 TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTAT
*
23012 TATATTGAAAGTGTCCATACCTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTA
1 TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTA
*
23077 -GTTTCAATTTTTTTTAATAGTGTTTCATGTTTTTCACCTACAATATTAATTTAATAATTTCATT
66 TGTTTCAA-TTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATT
23141 TGCACAAAAAATTA-TTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAACA
130 TGCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAACA
23205 ACATTAA
195 ACATTAA
23212 CCAAAGATAA
Statistics
Matches: 620, Mismatches: 8, Indels: 8
0.97 0.01 0.01
Matches are distributed among these distances:
429 187 0.30
430 6 0.01
431 1 0.00
432 65 0.10
433 361 0.58
ACGTcount: A:0.39, C:0.12, G:0.07, T:0.41
Consensus pattern (433 bp):
TATATTGAAAGTGTCCATACTTTTTATAAAAAGGATCGATACTTCTTTTAAAGTTATGTAATTTA
TGTTTCAATTTTTTTAATAGTGTTTCATGTTTTCCACCTACAATATTAATTTAATAATTTCATTT
GCACAAAAAATTATTTGATTATTTGATATTTTATAAAATATTATTTAGAATTTTTAATTTAACAA
CATTAAATATATATCGTAACGTAAAAAATAAATCATTAAACGCCTATAATTACTAAATTAAAATC
TTAAAACTCACTCAAAAGATAACCTTAAATTAATGTTTTCAACAGTGAAAAAAGTATGAACACTT
TTATAAAAAGGATAAACACTTTACAATATAACCACTACCTATTACATTATATAAACGATACCTAT
TACATTATATAAGCGCTACCTATTACATCATATTTTTACCTAT
Found at i:23471 original size:39 final size:39
Alignment explanation
Indices: 23417--23502 Score: 145
Period size: 39 Copynumber: 2.2 Consensus size: 39
23407 CAAGTTGTAG
*
23417 ATTTTGATTTCCTTTTGCTTGGCATCATATGAGATTTGA
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
* *
23456 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGCTTTGG
1 ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
23495 ATTTTGAT
1 ATTTTGAT
23503 GAGCATCGGA
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
39 44 1.00
ACGTcount: A:0.19, C:0.14, G:0.19, T:0.49
Consensus pattern (39 bp):
ATTTTGATTTCCTTTTGCTTGGCACCATATGAGATTTGA
Found at i:23781 original size:18 final size:18
Alignment explanation
Indices: 23758--23794 Score: 56
Period size: 18 Copynumber: 2.1 Consensus size: 18
23748 CGAAATATAT
23758 ATTGAAATTCAAACTCAA
1 ATTGAAATTCAAACTCAA
* *
23776 ATTGAAATTTAAATTCAA
1 ATTGAAATTCAAACTCAA
23794 A
1 A
23795 CTCCAATTAC
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 17 1.00
ACGTcount: A:0.51, C:0.11, G:0.05, T:0.32
Consensus pattern (18 bp):
ATTGAAATTCAAACTCAA
Found at i:24248 original size:28 final size:26
Alignment explanation
Indices: 24216--24277 Score: 67
Period size: 23 Copynumber: 2.4 Consensus size: 26
24206 GATAGATACT
*
24216 TTACAATATATTATATAAGCGCTACCTA
1 TTACAATATATTATA-AA-CGATACCTA
24244 TTAC-AT-TA-TATAAACGATACCTA
1 TTACAATATATTATAAACGATACCTA
*
24267 TTACATTATAT
1 TTACAATATAT
24278 ACTTGTAGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 8
0.74 0.05 0.21
Matches are distributed among these distances:
23 12 0.41
24 3 0.10
25 6 0.21
26 2 0.07
27 2 0.07
28 4 0.14
ACGTcount: A:0.40, C:0.16, G:0.05, T:0.39
Consensus pattern (26 bp):
TTACAATATATTATAAACGATACCTA
Found at i:24255 original size:23 final size:23
Alignment explanation
Indices: 24225--24278 Score: 90
Period size: 23 Copynumber: 2.3 Consensus size: 23
24215 TTTACAATAT
* *
24225 ATTATATAAGCGCTACCTATTAC
1 ATTATATAAACGATACCTATTAC
24248 ATTATATAAACGATACCTATTAC
1 ATTATATAAACGATACCTATTAC
24271 ATTATATA
1 ATTATATA
24279 CTTGTAGTTA
Statistics
Matches: 29, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
23 29 1.00
ACGTcount: A:0.41, C:0.17, G:0.06, T:0.37
Consensus pattern (23 bp):
ATTATATAAACGATACCTATTAC
Found at i:27021 original size:180 final size:183
Alignment explanation
Indices: 26737--27195 Score: 843
Period size: 180 Copynumber: 2.5 Consensus size: 183
26727 ACACATTTTA
* *
26737 GACATAAAGTACCGACACAATATTAAAAAGTGTCAATATAGGTTGTAGACATATTCGCGCATAAA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
26802 ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
26867 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
131 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
* *
26920 GACAT-AAGTACCGACACAATATTAAAAAGTGTCGA-ATAGGTTGTAGACCTATTCGCTCATACA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
26983 ACCGGTAT-TTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
66 ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
27047 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
131 TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
27100 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
1 GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
* *
27165 ACCGGTATATTTATACCGGTTATATTGCAAA
66 ACCGGTATATTTATACCTGTTATATTACAAA
27196 TTTACCTAGT
Statistics
Matches: 265, Mismatches: 8, Indels: 6
0.95 0.03 0.02
Matches are distributed among these distances:
180 114 0.43
181 63 0.24
182 63 0.24
183 25 0.09
ACGTcount: A:0.35, C:0.17, G:0.15, T:0.34
Consensus pattern (183 bp):
GACATAAAGTACCGACACAATATTAAAAAGTGTCGATATAGGTTGTAGACCTATTCGCGCATAAA
ACCGGTATATTTATACCTGTTATATTACAAAATTATCTATTACATTATAATTATGGGTTCCGATG
TGTAAATGTCGACACTTTTTTAAATCGTATCGACACATTTTTCTTCCAATATG
Found at i:28685 original size:3 final size:3
Alignment explanation
Indices: 28677--28751 Score: 60
Period size: 3 Copynumber: 25.0 Consensus size: 3
28667 ACTTGTTTGG
* * * ** * *
28677 ATC ATC ATC TTC ATC ATC ATC ATC GTC ATC ATC TTC ATC GCC AGC TTC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC ATC
* * *
28725 ATC GTC ATC ATC ATC GTC ATC TTC ATC
1 ATC ATC ATC ATC ATC ATC ATC ATC ATC
28752 GTCAGCTTCA
Statistics
Matches: 53, Mismatches: 19, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
3 53 1.00
ACGTcount: A:0.23, C:0.35, G:0.07, T:0.36
Consensus pattern (3 bp):
ATC
Found at i:28694 original size:12 final size:12
Alignment explanation
Indices: 28681--28763 Score: 94
Period size: 12 Copynumber: 6.9 Consensus size: 12
28671 GTTTGGATCA
*
28681 TCATCTTCATCA
1 TCATCTTCATCG
* * *
28693 TCATCATCGTCA
1 TCATCTTCATCG
28705 TCATCTTCATCG
1 TCATCTTCATCG
* *
28717 CCAGCTTCATCG
1 TCATCTTCATCG
*
28729 TCATCATCATCG
1 TCATCTTCATCG
28741 TCATCTTCATCG
1 TCATCTTCATCG
*
28753 TCAGCTTCATC
1 TCATCTTCATC
28764 TTCTGCGACC
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
12 59 1.00
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.36
Consensus pattern (12 bp):
TCATCTTCATCG
Found at i:28725 original size:36 final size:36
Alignment explanation
Indices: 28685--28763 Score: 122
Period size: 36 Copynumber: 2.2 Consensus size: 36
28675 GGATCATCAT
*
28685 CTTCATCATCATCATCGTCATCATCTTCATCGCCAG
1 CTTCATCATCATCATCATCATCATCTTCATCGCCAG
* * *
28721 CTTCATCGTCATCATCATCGTCATCTTCATCGTCAG
1 CTTCATCATCATCATCATCATCATCTTCATCGCCAG
28757 CTTCATC
1 CTTCATC
28764 TTCTGCGACC
Statistics
Matches: 39, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
36 39 1.00
ACGTcount: A:0.20, C:0.35, G:0.09, T:0.35
Consensus pattern (36 bp):
CTTCATCATCATCATCATCATCATCTTCATCGCCAG
Found at i:28764 original size:18 final size:18
Alignment explanation
Indices: 28705--28766 Score: 79
Period size: 18 Copynumber: 3.4 Consensus size: 18
28695 ATCATCGTCA
*
28705 TCATCTTCATCGCCAGCT
1 TCATCTTCATCGTCAGCT
* * * *
28723 TCATCGTCATCATCATCG
1 TCATCTTCATCGTCAGCT
28741 TCATCTTCATCGTCAGCT
1 TCATCTTCATCGTCAGCT
28759 TCATCTTC
1 TCATCTTC
28767 TGCGACCGCT
Statistics
Matches: 35, Mismatches: 9, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
18 35 1.00
ACGTcount: A:0.18, C:0.35, G:0.10, T:0.37
Consensus pattern (18 bp):
TCATCTTCATCGTCAGCT
Found at i:28766 original size:6 final size:6
Alignment explanation
Indices: 28681--28766 Score: 64
Period size: 6 Copynumber: 14.3 Consensus size: 6
28671 GTTTGGATCA
* * * * * * * *
28681 TCATCT TCATCA TCATCA TCGTCA TCATCT TCATCG CCAGCT TCATCG
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT
* * * *
28729 TCATCA TCATCG TCATCT TCATCG TCAGCT TCATCT TC
1 TCATCT TCATCT TCATCT TCATCT TCATCT TCATCT TC
28767 TGCGACCGCT
Statistics
Matches: 62, Mismatches: 18, Indels: 0
0.77 0.22 0.00
Matches are distributed among these distances:
6 62 1.00
ACGTcount: A:0.20, C:0.35, G:0.08, T:0.37
Consensus pattern (6 bp):
TCATCT
Found at i:31162 original size:198 final size:198
Alignment explanation
Indices: 30223--31896 Score: 3112
Period size: 198 Copynumber: 8.5 Consensus size: 198
30213 TTTAAATTAG
*
30223 TATCGACACAAACTATATTAATGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
30288 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
30353 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATAT-T-TAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT-TCTGGAAA
* *
30415 TTAG
195 TAAA
30419 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
30484 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
* *
30549 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCATGTTTTCCATTCATAT-T-TAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT-TCTGGAAA
* *
30611 TTAG
195 TAAA
30615 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
30680 ATTGTACCGGTTAGATTGAAAAATTACATATTAAATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
30745 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCATGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
30809 AAA
196 AAA
30812 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACC-GTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
30876 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
30941 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
31006 AAA
196 AAA
31009 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
31074 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
31139 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
31204 AAA
196 AAA
31207 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
31272 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
31337 CGACACTTTTTATATATGGATCGACACTTTATGGGTGTACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
*
31402 AAAA
195 TAAA
31406 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
31471 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
31536 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
31601 AAA
196 AAA
*
31604 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
31669 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
31734 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAA
131 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-AAA
*
31799 AAAA
195 TAAA
31803 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
31868 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
31897 CCTTTTGGCC
Statistics
Matches: 1454, Mismatches: 18, Indels: 9
0.98 0.01 0.01
Matches are distributed among these distances:
195 1 0.00
196 480 0.33
197 157 0.11
198 522 0.36
199 294 0.20
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (198 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
AAA
Found at i:31534 original size:397 final size:396
Alignment explanation
Indices: 30223--31896 Score: 3112
Period size: 397 Copynumber: 4.2 Consensus size: 396
30213 TTTAAATTAG
*
30223 TATCGACACAAACTATATTAATGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
30288 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
30353 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATAT-T-TAAAT
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCAT-TCTGGAAAT
* *
30416 TAGTATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
*
30481 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGG
260 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGG
*
30546 GATCGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCATGTTTTCCATTCATAT-T--
325 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCAT-TCTGG
* ** *
30607 TAAATTAG
389 AAAAAAAA
30615 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
*
30680 ATTGTACCGGTTAGATTGAAAAATTACATATTAAATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
*
30745 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCATGTTTTCCATTCATTCTGGAAATA
131 CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
30810 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACC-GTA
196 AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
*
30874 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGG
261 TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGG
30939 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGG-A
326 ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
*
31003 AATAAA
391 AAAAAA
31009 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
31074 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
31139 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAAT
31204 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
31269 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGG
260 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGG
*
31334 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGTACCCTGTTTTCCATTCATTCTGGA
325 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
31399 AAAAAAA
390 AAAAAAA
31406 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
31471 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
66 ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
31536 CGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAAAT
131 CGACACTTTTTATATATGGATCGACACTTTAT-GGTGCACCCTGTTTTCCATTCATTCTGGAAAT
*
31601 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTATCACATAAAACCGGT
195 AAATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGT
31666 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGG
260 ATAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGG
31731 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
325 GATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGA
31796 AAAAAAA
390 AAAAAAA
31803 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
1 TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
31868 ATTGTACCGGTTAGATTGAAAAATTACAT
66 ATTGTACCGGTTAGATTGAAAAATTACAT
31897 CCTTTTGGCC
Statistics
Matches: 1257, Mismatches: 16, Indels: 13
0.98 0.01 0.01
Matches are distributed among these distances:
391 1 0.00
392 286 0.23
393 87 0.07
394 166 0.13
395 93 0.07
396 129 0.10
397 495 0.39
ACGTcount: A:0.32, C:0.16, G:0.15, T:0.36
Consensus pattern (396 bp):
TATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTATA
ATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATTTTGGGAT
CGACACTTTTTATATATGGATCGACACTTTATGGTGCACCCTGTTTTCCATTCATTCTGGAAATA
AATATCGACACAAACTATATTAGTGTCGACACATTATTTAGACATATTCTCACATAAAACCGGTA
TAATTGTACCGGTTAGATTGAAAAATTACATATTACATTATACTTTTGGGTTCGATGATATTGGG
ATCGACACTTTTTATATATGGATCGACACTTTATGGGTGCACCCTGTTTTCCATTCATTCTGGAA
AAAAAA
Found at i:32274 original size:34 final size:32
Alignment explanation
Indices: 32221--32290 Score: 104
Period size: 34 Copynumber: 2.1 Consensus size: 32
32211 CCTTACAAAC
*
32221 TCCCTAGTTTTTCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
*
32253 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTAC-CGGGCTAAACTAGAACCTT
32287 TCCC
1 TCCC
32291 CTTTACAAAA
Statistics
Matches: 34, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
32 7 0.21
33 5 0.15
34 22 0.65
ACGTcount: A:0.21, C:0.31, G:0.16, T:0.31
Consensus pattern (32 bp):
TCCCTAGTTTTACCGGGCTAAACTAGAACCTT
Found at i:32598 original size:21 final size:21
Alignment explanation
Indices: 32572--32613 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
32562 CCAGAATGGG
* *
32572 GGGAATCGGTACCCTTTCATA
1 GGGAATCGATACCCCTTCATA
32593 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
32614 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:32751 original size:21 final size:22
Alignment explanation
Indices: 32720--32763 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
32710 AAGCCAAAAA
32720 CCTGCAGGGGGAATCTGTACCC
1 CCTGCAGGGGGAATCTGTACCC
* *
32742 CCTGCGGGGGGTATCTGTACCC
1 CCTGCAGGGGGAATCTGTACCC
32764 GGGGTATCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.32, G:0.34, T:0.20
Consensus pattern (22 bp):
CCTGCAGGGGGAATCTGTACCC
Found at i:32769 original size:15 final size:15
Alignment explanation
Indices: 32749--32778 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
32739 CCCCCTGCGG
32749 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
32764 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
32779 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:32788 original size:21 final size:21
Alignment explanation
Indices: 32726--32805 Score: 82
Period size: 21 Copynumber: 4.0 Consensus size: 21
32716 AAAACCTGCA
32726 GGGGGAATCTGTACCCCCTGCG
1 GGGGGAATCTGTACCCCCTG-G
*
32748 GGGGGTATCTGTA--CCC---
1 GGGGGAATCTGTACCCCCTGG
*
32764 -GGGGTATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
*
32784 GGGGGAATCTATACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
32805 G
1 G
32806 CAATCTTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
15 12 0.24
17 3 0.06
20 3 0.06
21 19 0.39
22 12 0.24
ACGTcount: A:0.14, C:0.29, G:0.36, T:0.21
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:32799 original size:36 final size:37
Alignment explanation
Indices: 32727--32799 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
32717 AAACCTGCAG
* *
32727 GGGGAATCTGTACCCCCTGCGGGGGGTATCTGTACCC
1 GGGGAATCTGTACCCCCTGCGGGGGGAATCTATACCC
*
32764 GGGGTATCTGTACCCCCTG-GGGGGGAATCTATACCC
1 GGGGAATCTGTACCCCCTGCGGGGGGAATCTATACCC
32800 CCTGGGCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 15 0.45
37 18 0.55
ACGTcount: A:0.15, C:0.29, G:0.34, T:0.22
Consensus pattern (37 bp):
GGGGAATCTGTACCCCCTGCGGGGGGAATCTATACCC
Found at i:32927 original size:29 final size:31
Alignment explanation
Indices: 32895--32954 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
32885 AAACTTTGAA
*
32895 TAAATTCAATT-ACGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
32924 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
32955 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:34265 original size:19 final size:20
Alignment explanation
Indices: 34222--34269 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
34212 TCTAAATCCT
*
34222 TTTTCAAAATTTCATTTTGG
1 TTTTCAAAATCTCATTTTGG
* *
34242 CTTTCAAAATCT-ATTTTTG
1 TTTTCAAAATCTCATTTTGG
34261 TTTTCAAAA
1 TTTTCAAAA
34270 GAAAATCATT
Statistics
Matches: 24, Mismatches: 4, Indels: 1
0.83 0.14 0.03
Matches are distributed among these distances:
19 14 0.58
20 10 0.42
ACGTcount: A:0.29, C:0.12, G:0.06, T:0.52
Consensus pattern (20 bp):
TTTTCAAAATCTCATTTTGG
Found at i:35094 original size:34 final size:33
Alignment explanation
Indices: 35040--35107 Score: 100
Period size: 34 Copynumber: 2.0 Consensus size: 33
35030 CCTTACAAAC
* *
35040 TCCCTAGTTTTTCCCGGGCTAAACTAGAACCTT
1 TCCCTAGTTTTACACGGGCTAAACTAGAACCTT
*
35073 TCCCTAGCTTTTACACGGGCTAAGCTAGAACCTT
1 TCCCTAG-TTTTACACGGGCTAAACTAGAACCTT
35107 T
1 T
35108 TCCCCTTTAC
Statistics
Matches: 31, Mismatches: 3, Indels: 1
0.89 0.09 0.03
Matches are distributed among these distances:
33 7 0.23
34 24 0.77
ACGTcount: A:0.22, C:0.29, G:0.16, T:0.32
Consensus pattern (33 bp):
TCCCTAGTTTTACACGGGCTAAACTAGAACCTT
Found at i:35420 original size:21 final size:21
Alignment explanation
Indices: 35394--35435 Score: 66
Period size: 21 Copynumber: 2.0 Consensus size: 21
35384 CTAGAATGGG
* *
35394 GGGAATCGGTACCCTTTCATA
1 GGGAATCGATACCCCTTCATA
35415 GGGAATCGATACCCCTTCATA
1 GGGAATCGATACCCCTTCATA
35436 ATATTCAAAT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.26, G:0.21, T:0.26
Consensus pattern (21 bp):
GGGAATCGATACCCCTTCATA
Found at i:35498 original size:21 final size:21
Alignment explanation
Indices: 35472--35535 Score: 128
Period size: 21 Copynumber: 3.0 Consensus size: 21
35462 TGTTGAACAT
35472 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
35493 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
35514 GGGGGGAATCGGTACCCCCTG
1 GGGGGGAATCGGTACCCCCTG
35535 G
1 G
35536 ACATTCTGTT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.14, C:0.28, G:0.44, T:0.14
Consensus pattern (21 bp):
GGGGGGAATCGGTACCCCCTG
Found at i:35593 original size:21 final size:22
Alignment explanation
Indices: 35562--35605 Score: 70
Period size: 22 Copynumber: 2.0 Consensus size: 22
35552 AAGCCAAAAA
35562 CCTGCAGGGGGAATCTGTACCC
1 CCTGCAGGGGGAATCTGTACCC
* *
35584 CCTGCGGGGGGTATCTGTACCC
1 CCTGCAGGGGGAATCTGTACCC
35606 GGGGTATCTG
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.14, C:0.32, G:0.34, T:0.20
Consensus pattern (22 bp):
CCTGCAGGGGGAATCTGTACCC
Found at i:35611 original size:15 final size:15
Alignment explanation
Indices: 35591--35620 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
35581 CCCCCTGCGG
35591 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
35606 GGGGTATCTGTACCC
1 GGGGTATCTGTACCC
35621 CCTGGGGGGG
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.27, G:0.33, T:0.27
Consensus pattern (15 bp):
GGGGTATCTGTACCC
Found at i:35630 original size:21 final size:21
Alignment explanation
Indices: 35568--35647 Score: 82
Period size: 21 Copynumber: 4.0 Consensus size: 21
35558 AAAACCTGCA
35568 GGGGGAATCTGTACCCCCTGCG
1 GGGGGAATCTGTACCCCCTG-G
*
35590 GGGGGTATCTGTA--CCC---
1 GGGGGAATCTGTACCCCCTGG
*
35606 -GGGGTATCTGTACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
*
35626 GGGGGAATCTATACCCCCTGG
1 GGGGGAATCTGTACCCCCTGG
35647 G
1 G
35648 CAATCTTGAA
Statistics
Matches: 49, Mismatches: 3, Indels: 13
0.75 0.05 0.20
Matches are distributed among these distances:
15 12 0.24
17 3 0.06
20 3 0.06
21 19 0.39
22 12 0.24
ACGTcount: A:0.14, C:0.29, G:0.36, T:0.21
Consensus pattern (21 bp):
GGGGGAATCTGTACCCCCTGG
Found at i:35641 original size:36 final size:37
Alignment explanation
Indices: 35569--35641 Score: 112
Period size: 37 Copynumber: 2.0 Consensus size: 37
35559 AAACCTGCAG
* *
35569 GGGGAATCTGTACCCCCTGCGGGGGGTATCTGTACCC
1 GGGGAATCTGTACCCCCTGCGGGGGGAATCTATACCC
*
35606 GGGGTATCTGTACCCCCTG-GGGGGGAATCTATACCC
1 GGGGAATCTGTACCCCCTGCGGGGGGAATCTATACCC
35642 CCTGGGCAAT
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
36 15 0.45
37 18 0.55
ACGTcount: A:0.15, C:0.29, G:0.34, T:0.22
Consensus pattern (37 bp):
GGGGAATCTGTACCCCCTGCGGGGGGAATCTATACCC
Found at i:35769 original size:29 final size:31
Alignment explanation
Indices: 35737--35796 Score: 97
Period size: 29 Copynumber: 2.0 Consensus size: 31
35727 AAACTTTGAA
*
35737 TAAATTCAATT-ACGTCCAAAAA-CATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
35766 TAAATTCAATTCAAGTCCAAAAACCATTTTG
1 TAAATTCAATTCAAGTCCAAAAACCATTTTG
35797 CCTTAAATTG
Statistics
Matches: 28, Mismatches: 1, Indels: 2
0.90 0.03 0.06
Matches are distributed among these distances:
29 11 0.39
30 10 0.36
31 7 0.25
ACGTcount: A:0.42, C:0.18, G:0.07, T:0.33
Consensus pattern (31 bp):
TAAATTCAATTCAAGTCCAAAAACCATTTTG
Found at i:35919 original size:19 final size:19
Alignment explanation
Indices: 35873--35921 Score: 80
Period size: 19 Copynumber: 2.6 Consensus size: 19
35863 TTATATTCAC
*
35873 ATACAAAAATATAAATCGT
1 ATACAAAATTATAAATCGT
*
35892 ATACAAAATTATAAATCTT
1 ATACAAAATTATAAATCGT
35911 ATACAAAATTA
1 ATACAAAATTA
35922 ACCCTACATT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
19 28 1.00
ACGTcount: A:0.57, C:0.10, G:0.02, T:0.31
Consensus pattern (19 bp):
ATACAAAATTATAAATCGT
Found at i:37748 original size:33 final size:33
Alignment explanation
Indices: 37711--37776 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
37701 CATCTTAATA
*
37711 TCACCCCTTAACACCCCAACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
* *
37744 TCACCCCTCAACACCTCTACTTCTTTCACCACT
1 TCACCCCTCAACACCCCAACTTCTTTCACCACT
37777 CCATCTATTT
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.23, C:0.48, G:0.00, T:0.29
Consensus pattern (33 bp):
TCACCCCTCAACACCCCAACTTCTTTCACCACT
Found at i:37850 original size:21 final size:21
Alignment explanation
Indices: 37810--37874 Score: 69
Period size: 21 Copynumber: 3.1 Consensus size: 21
37800 CCCCTTATGC
* *
37810 CTCTCGAGTGTATCTTCGACT
1 CTCTCGAGTTTCTCTTCGACT
*
37831 CTCTCGAGTTTCTCTACGACT
1 CTCTCGAGTTTCTCTTCGACT
* *
37852 -TGATCAAGTTTCTCTTCGACT
1 CT-CTCGAGTTTCTCTTCGACT
37873 CT
1 CT
37875 TGATTGTCTT
Statistics
Matches: 36, Mismatches: 6, Indels: 3
0.80 0.13 0.07
Matches are distributed among these distances:
20 1 0.03
21 34 0.94
22 1 0.03
ACGTcount: A:0.15, C:0.29, G:0.15, T:0.40
Consensus pattern (21 bp):
CTCTCGAGTTTCTCTTCGACT
Found at i:40261 original size:20 final size:20
Alignment explanation
Indices: 40235--40280 Score: 76
Period size: 20 Copynumber: 2.3 Consensus size: 20
40225 CACTTTTAAA
40235 TTTACCGGTTTTATCAT-TT
1 TTTACCGGTTTTATCATATT
40254 TGTTACCGGTTTTATCATATT
1 T-TTACCGGTTTTATCATATT
40275 TTTACC
1 TTTACC
40281 TGGTATATCG
Statistics
Matches: 25, Mismatches: 0, Indels: 3
0.89 0.00 0.11
Matches are distributed among these distances:
19 1 0.04
20 21 0.84
21 3 0.12
ACGTcount: A:0.17, C:0.17, G:0.11, T:0.54
Consensus pattern (20 bp):
TTTACCGGTTTTATCATATT
Found at i:42746 original size:18 final size:18
Alignment explanation
Indices: 42723--42758 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
42713 TTTCGGTTTG
*
42723 AAAAAAATCGGGTTTTAA
1 AAAAAAACCGGGTTTTAA
*
42741 AAAAAAACCGGTTTTTAA
1 AAAAAAACCGGGTTTTAA
42759 TTCGGTAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.50, C:0.08, G:0.14, T:0.28
Consensus pattern (18 bp):
AAAAAAACCGGGTTTTAA
Found at i:44903 original size:18 final size:18
Alignment explanation
Indices: 44880--44920 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
44870 TGCTTTAAAT
44880 AAAATTAATTAATTAGAA
1 AAAATTAATTAATTAGAA
** *
44898 AAAATTCTTTAATTTGAA
1 AAAATTAATTAATTAGAA
44916 AAAAT
1 AAAAT
44921 CTCAAAATTA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.56, C:0.02, G:0.05, T:0.37
Consensus pattern (18 bp):
AAAATTAATTAATTAGAA
Found at i:46659 original size:23 final size:23
Alignment explanation
Indices: 46633--46677 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
46623 CACCACAGCT
*
46633 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
46656 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
46678 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:46915 original size:149 final size:149
Alignment explanation
Indices: 46656--46959 Score: 581
Period size: 149 Copynumber: 2.0 Consensus size: 149
46646 CGAAGTGCCC
*
46656 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
46721 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTACAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTACAAAGAATATA
*
46786 CATATGTCCCGAAGAACCG
131 CATATGTCCCAAAGAACCG
46805 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
*
46870 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTACAAAGAATATA
46935 CATATGTCCCAAAGAACCG
131 CATATGTCCCAAAGAACCG
46954 CGTAGA
1 CGTAGA
46960 CCCTCGACTC
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (149 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTACAAAGAATATA
CATATGTCCCAAAGAACCG
Found at i:47502 original size:2 final size:2
Alignment explanation
Indices: 47495--47522 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
47485 TCTCTTAGAC
47495 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT
47523 TCACATGTTC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:47865 original size:18 final size:18
Alignment explanation
Indices: 47844--47878 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
47834 TCCCATCTAG
47844 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
47862 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
47879 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:48490 original size:21 final size:21
Alignment explanation
Indices: 48466--48510 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
48456 TCTTGTTCGT
* *
48466 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
48487 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
48508 TTG
1 TTG
48511 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:51668 original size:23 final size:23
Alignment explanation
Indices: 51642--51686 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
51632 CACCACAGCT
*
51642 CGTATAAATGCACCGAAGTGCCC
1 CGTAGAAATGCACCGAAGTGCCC
* *
51665 CGTAGAATTGCACCGTAGTGCC
1 CGTAGAAATGCACCGAAGTGCC
51687 ATATAATGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.29, G:0.24, T:0.20
Consensus pattern (23 bp):
CGTAGAAATGCACCGAAGTGCCC
Found at i:51924 original size:149 final size:148
Alignment explanation
Indices: 51665--51967 Score: 588
Period size: 149 Copynumber: 2.0 Consensus size: 148
51655 CGAAGTGCCC
*
51665 CGTAGAATTGCACCGTAGTGCCATATAATGATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
51730 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
51795 CATATGTCCCGAAGAACCG
131 CATATGT-CCGAAGAACCG
51814 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
1 CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
51879 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
66 CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
51944 CATATGTCCGAAGAACCG
131 CATATGTCCGAAGAACCG
51962 CGTAGA
1 CGTAGA
51968 CCCTCGACTC
Statistics
Matches: 153, Mismatches: 1, Indels: 1
0.99 0.01 0.01
Matches are distributed among these distances:
148 17 0.11
149 136 0.89
ACGTcount: A:0.35, C:0.20, G:0.17, T:0.27
Consensus pattern (148 bp):
CGTAGAATTGCACCGTAGTGCCATATAATAATGTCCATAAGGACCACATAGAATTCTTTAAGAAT
CATATACATATGCTAGGGATCAAGTATGTGTCTTTCCAGACTTCACACATGTTCCAAAGAATATA
CATATGTCCGAAGAACCG
Found at i:52859 original size:18 final size:18
Alignment explanation
Indices: 52838--52872 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
52828 TCCCATCTAG
52838 CTTATC-TTATATGTTCAT
1 CTTATCATT-TATGTTCAT
52856 CTTATCATTTATGTTCA
1 CTTATCATTTATGTTCA
52873 AATCTCCTAG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.23, C:0.17, G:0.06, T:0.54
Consensus pattern (18 bp):
CTTATCATTTATGTTCAT
Found at i:53485 original size:21 final size:21
Alignment explanation
Indices: 53461--53505 Score: 63
Period size: 21 Copynumber: 2.1 Consensus size: 21
53451 TCTTGTTCGT
* *
53461 TTGAAGGGGTATCGGTTCCCC
1 TTGAAGGGGTACCGATTCCCC
*
53482 TTGAATGGGTACCGATTCCCC
1 TTGAAGGGGTACCGATTCCCC
53503 TTG
1 TTG
53506 CCCAGAAATC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 21 1.00
ACGTcount: A:0.16, C:0.24, G:0.29, T:0.31
Consensus pattern (21 bp):
TTGAAGGGGTACCGATTCCCC
Found at i:54620 original size:3 final size:3
Alignment explanation
Indices: 54614--54657 Score: 54
Period size: 3 Copynumber: 14.7 Consensus size: 3
54604 ATAATTTTAT
* *
54614 TAA TAA TAA -ATA TAA TAA TAA TAA TAT TAA TAA TAT TAA TAA TA
1 TAA TAA TAA TA-A TAA TAA TAA TAA TAA TAA TAA TAA TAA TAA TA
54658 TTTTTTAAGC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
2 1 0.03
3 33 0.94
4 1 0.03
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (3 bp):
TAA
Found at i:54622 original size:15 final size:15
Alignment explanation
Indices: 54602--54653 Score: 59
Period size: 15 Copynumber: 3.5 Consensus size: 15
54592 CAAGCACATG
*
54602 TAATAATTTTATTAA
1 TAATAATTTTAATAA
* *
54617 TAATAAATATAATAA
1 TAATAATTTTAATAA
*
54632 TAATAATATTAATAA
1 TAATAATTTTAATAA
*
54647 TATTAAT
1 TAATAAT
54654 AATATTTTTT
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
15 30 1.00
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
TAATAATTTTAATAA
Found at i:54658 original size:9 final size:9
Alignment explanation
Indices: 54611--54659 Score: 64
Period size: 9 Copynumber: 5.4 Consensus size: 9
54601 GTAATAATTT
54611 TATTAATAA
1 TATTAATAA
*
54620 TA-AATATAA
1 TATTA-ATAA
*
54629 TAATAATAA
1 TATTAATAA
54638 TATTAATAA
1 TATTAATAA
54647 TATTAATAA
1 TATTAATAA
54656 TATT
1 TATT
54660 TTTTAAGCTC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
8 1 0.03
9 33 0.94
10 1 0.03
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (9 bp):
TATTAATAA
Found at i:54949 original size:91 final size:90
Alignment explanation
Indices: 54783--54951 Score: 277
Period size: 91 Copynumber: 1.9 Consensus size: 90
54773 CGTTGTTGGA
*
54783 TTGAACAAGTTCTTCTCATTATGAACTTTTTCTCTCTTGTGGATGAGTTATTCTCATTATGAACT
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTTGTGGATGAGTTATTCTCATTATGAACT
*
54848 CTTCACTGGAAACAATGATGCAAGG
66 CTCCACTGGAAACAATGATGCAAGG
*
54873 TTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCTT-TGGATGAGTTCTTCTCATTATGAA
1 TTGAACAAGTTCTTCTCATTATGAACTTCTTC-TC-TCTTGTGGATGAGTTATTCTCATTATGAA
*
54937 CTCTCCATTGGAAAC
64 CTCTCCACTGGAAAC
54952 GTTGATCCAC
Statistics
Matches: 73, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
90 31 0.42
91 38 0.52
92 4 0.05
ACGTcount: A:0.25, C:0.20, G:0.15, T:0.41
Consensus pattern (90 bp):
TTGAACAAGTTCTTCTCATTATGAACTTCTTCTCTCTTGTGGATGAGTTATTCTCATTATGAACT
CTCCACTGGAAACAATGATGCAAGG
Found at i:55326 original size:241 final size:242
Alignment explanation
Indices: 54870--55434 Score: 819
Period size: 241 Copynumber: 2.3 Consensus size: 242
54860 CAATGATGCA
* * * * *
54870 AGGTTGAACAAGTTCTTCTCATTATGAACTTCTTCTTCTTCT-TTGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
* *
54934 GAACTCTCCATTGGAAACGTTGATCCACCTCCTTCTTTGATGGAATCAAAAGGAACAAGCTCTTC
66 GAACTCTCCATTGGAAATGTTGATCCACCTCCTTCTATGATGGAATCAAAAGGAACAAGCTCTTC
* * ** * * ***
54999 TCATTATGCACTTTCTCCTTGTTGAATTAGTTCTTCTCATTATGAACTCTTCTGGAAATGTTGGT
131 TCATTATGAACTTTCTCCTTGTAGAACGAGTTATTCTCATTATGAACTCTTCTGAAAATGTCAAT
* * *
55064 CCCTCAAGCGAGGCGTCACTGATTTGAAATGCCGTGAATCGAGTGAT
196 CCCTCAAGCGAGGCGTCACTGATTCGAAATGCAGTGAATCAAGTGAT
55111 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
* * ** * *
55176 GTACTCTCCATTGAAAATGTTGATCCACCTTTTTCTATGATGGAATCGAAAGGAACAAGTTCTTC
66 GAACTCTCCATTGGAAATGTTGATCCACCTCCTTCTATGATGGAATCAAAAGGAACAAGCTCTTC
*
55241 TCATTATGAACTTTTTCCTT-TAGAACGAGTTATTCTCATTATGAACTCTTCTGAAAATGTCAAT
131 TCATTATGAACTTTCTCCTTGTAGAACGAGTTATTCTCATTATGAACTCTTCTGAAAATGTCAAT
*
55305 CCCTCAAGCGAGGTGTCACTGATTCGAAATGCAGTGAATCAAGTGAT
196 CCCTCAAGCGAGGCGTCACTGATTCGAAATGCAGTGAATCAAGTGAT
* * * * *
55352 AGGTCGAACAAGCTCTTCTCGTTATTAACTTCTTCTCCCTCTGTCAGATGAGTTTTTCTCATTAG
1 AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
*
55417 GAACTCTTCATTGGAAAT
66 GAACTCTCCATTGGAAAT
55435 TTCAATCCCT
Statistics
Matches: 288, Mismatches: 35, Indels: 2
0.89 0.11 0.01
Matches are distributed among these distances:
241 192 0.67
242 96 0.33
ACGTcount: A:0.25, C:0.22, G:0.17, T:0.36
Consensus pattern (242 bp):
AGGTCGAACAAGCTCTTCTCATTATGAACTTCTTCTCCCTCTGTCGGATGAGTTCTTCTCATTAT
GAACTCTCCATTGGAAATGTTGATCCACCTCCTTCTATGATGGAATCAAAAGGAACAAGCTCTTC
TCATTATGAACTTTCTCCTTGTAGAACGAGTTATTCTCATTATGAACTCTTCTGAAAATGTCAAT
CCCTCAAGCGAGGCGTCACTGATTCGAAATGCAGTGAATCAAGTGAT
Found at i:55694 original size:131 final size:130
Alignment explanation
Indices: 55228--55696 Score: 584
Period size: 131 Copynumber: 3.6 Consensus size: 130
55218 GAATCGAAAG
* * * * * *
55228 GAACAAGTTCTTCTCATTATGAACTTTTTCCTTT-AGAACGAGTTATTCTCATTATGAACTCTT-
1 GAACAAGCTCTTCTCATTATGAACTTATT-CTTTCTGGATGAGTTCTTCTCATTATGAACTCTTA
* * * * *
55291 CTGAAAATGTCAATCCCTCAAGCGAGGTGTCACTGATTCGAAATGCAGTGAATCAAGTGATAGGT
65 CTGGAAATTTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAGTGATAGGT
55356 C
130 C
* * * * * *
55357 GAACAAGCTCTTCTCGTTATTAACTTCTTCTCCCTCTGTCAGATGAGTTTTTCTCATTAGGAACT
1 GAACAAGCTCTTCTCATTATGAACTTATTCT--TTCTG---GATGAGTTCTTCTCATTATGAACT
* * *
55422 CTTCATTGGAAATTTCAATCCCTCAAGCGAGGCGTCACTGATCCGAAATGTCGTGAATCGAGTGA
61 CTT-ACTGGAAATTTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAGTGA
55487 TAGGTC
125 TAGGTC
* * * *
55493 GAACAAGTTCTTCTCATTATGAACTTATTATTCCTGGATGAGTTCTTCTCATTATGAACTCTCCA
1 GAACAAGCTCTTCTCATTATGAACTTATTCTTTCTGGATGAGTTCTTCTCATTATGAACTCT-TA
* * *
55558 TTGGAAATTTCAAAT-CCTCATGCGAGGCATCACTGATTCGAAATGCCGTGAATCGAGTGATAGG
65 CTGGAAATTTC-AATCCCTCAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAGTGATAGG
55622 TC
129 TC
55624 GAACAAGCTCTTCTCATTATGAACTTATTCTTTCTGGATGAGTTCTTCTCATTATGAACTCTGTA
1 GAACAAGCTCTTCTCATTATGAACTTATTCTTTCTGGATGAGTTCTTCTCATTATGAACTCT-TA
55689 CTGGAAAT
65 CTGGAAAT
55697 GTTGATCTGT
Statistics
Matches: 292, Mismatches: 38, Indels: 18
0.84 0.11 0.05
Matches are distributed among these distances:
128 2 0.01
129 25 0.09
130 1 0.00
131 151 0.52
132 3 0.01
134 26 0.09
136 84 0.29
ACGTcount: A:0.27, C:0.21, G:0.18, T:0.34
Consensus pattern (130 bp):
GAACAAGCTCTTCTCATTATGAACTTATTCTTTCTGGATGAGTTCTTCTCATTATGAACTCTTAC
TGGAAATTTCAATCCCTCAAGCGAGGCGTCACTGATTCGAAATGCCGTGAATCGAGTGATAGGTC
Found at i:56053 original size:61 final size:62
Alignment explanation
Indices: 55943--56208 Score: 176
Period size: 73 Copynumber: 4.0 Consensus size: 62
55933 TAAGAAACTT
* ** * *
55943 GTTTTAAGAGAAACTGTCTCGAGTGAGATAAATTTTGTTTCGAA-TGAAAATTGTCTCAAG-G
1 GTTTTAAGAAAAACCATCTCAAGTGAGATAAATTTTGTTTC-AAGGGAAAATTGTCTCAAGAG
* * *
56004 GTTTTAAGAAAAAGCATCTCAAGTGAGATAAATTTTATTTCAAGGGAAAACTGTCTTAAGCAAGA
1 GTTTTAAGAAAAACCATCTCAAGTGAGATAAATTTTGTTTCAAGGGAAAATTGTC-T---C----
56069 AGAAGTAG
58 --AAG-AG
* *
56077 GTTTTAAGAAAAACCATCTCAAGTGAGATACATTTTGTTTCAAGGGAAAGTTGTCTCAAGCGAGA
1 GTTTTAAGAAAAACCATCTCAAGTGAGATAAATTTTGTTTCAAGGGAAAATTGTCTC-A---AG-
56142 CAAAG
61 ---AG
* * * * *
56147 TTGATTTTAAGAAAAACCATCTCAAGGGAGACACATTTTATTTCAAGGGAAATTTGTCTCAA
1 --G-TTTTAAGAAAAACCATCTCAAGTGAGATAAATTTTGTTTCAAGGGAAAATTGTCTCAA
56209 AGATTTGTTT
Statistics
Matches: 164, Mismatches: 19, Indels: 36
0.75 0.09 0.16
Matches are distributed among these distances:
60 2 0.01
61 44 0.27
62 1 0.01
64 1 0.01
65 1 0.01
67 2 0.01
69 2 0.01
70 2 0.01
71 3 0.02
72 3 0.02
73 103 0.63
ACGTcount: A:0.38, C:0.12, G:0.20, T:0.30
Consensus pattern (62 bp):
GTTTTAAGAAAAACCATCTCAAGTGAGATAAATTTTGTTTCAAGGGAAAATTGTCTCAAGAG
Found at i:56122 original size:73 final size:73
Alignment explanation
Indices: 56003--56208 Score: 279
Period size: 73 Copynumber: 2.8 Consensus size: 73
55993 TTGTCTCAAG
* * *
56003 GGTTTTAAGAAAAAGCATCTCAAGTGAGATAAATTTTATTTCAAGGGAAAACTGTCTTAAGCAAG
1 GGTTTTAAGAAAAACCATCTCAAGTGAGATACATTTTATTTCAAGGGAAAACTGTCTCAAGCAAG
56068 A-AGAAGTA
66 ACA-AAGTA
* ** *
56076 GGTTTTAAGAAAAACCATCTCAAGTGAGATACATTTTGTTTCAAGGGAAAGTTGTCTCAAGCGAG
1 GGTTTTAAGAAAAACCATCTCAAGTGAGATACATTTTATTTCAAGGGAAAACTGTCTCAAGCAAG
*
56141 ACAAAGTT
66 ACAAAGTA
* * * **
56149 GATTTTAAGAAAAACCATCTCAAGGGAGACACATTTTATTTCAAGGGAAATTTGTCTCAA
1 GGTTTTAAGAAAAACCATCTCAAGTGAGATACATTTTATTTCAAGGGAAAACTGTCTCAA
56209 AGATTTGTTT
Statistics
Matches: 119, Mismatches: 13, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
73 118 0.99
74 1 0.01
ACGTcount: A:0.39, C:0.13, G:0.20, T:0.29
Consensus pattern (73 bp):
GGTTTTAAGAAAAACCATCTCAAGTGAGATACATTTTATTTCAAGGGAAAACTGTCTCAAGCAAG
ACAAAGTA
Found at i:56208 original size:37 final size:37
Alignment explanation
Indices: 56093--56208 Score: 99
Period size: 37 Copynumber: 3.2 Consensus size: 37
56083 AGAAAAACCA
* * * *
56093 TCTCAAGTGAGATACATTTTGTTTCAAGGGAAAGTTG
1 TCTCAAGCGAGACACATTTTATTTCAAGGGAAAATTG
* * * * * ***
56130 TCTCAAGCGAGACAAAGTTGATTTTAA-GAAAAACCA
1 TCTCAAGCGAGACACATTTTATTTCAAGGGAAAATTG
* *
56166 TCTCAAGGGAGACACATTTTATTTCAAGGGAAATTTG
1 TCTCAAGCGAGACACATTTTATTTCAAGGGAAAATTG
56203 TCTCAA
1 TCTCAA
56209 AGATTTGTTT
Statistics
Matches: 56, Mismatches: 22, Indels: 2
0.70 0.28 0.03
Matches are distributed among these distances:
36 26 0.46
37 30 0.54
ACGTcount: A:0.35, C:0.15, G:0.20, T:0.30
Consensus pattern (37 bp):
TCTCAAGCGAGACACATTTTATTTCAAGGGAAAATTG
Found at i:56506 original size:39 final size:39
Alignment explanation
Indices: 56214--57021 Score: 941
Period size: 39 Copynumber: 21.0 Consensus size: 39
56204 CTCAAAGATT
* * *
56214 TGTTTCAAGAGAAACTGTCTCAAGGGAGACAAAA--TTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* * * * * *
56251 -GTTCCAAGAGAAACTGTCTCAAGGGAGATGTTCTCAAAATTTTA
1 TGTTTCAAGGGAAACTATCTCAAGCGAGA------CAAAATCTTC
* * *
56295 TGTTTCAAGGGAAACTATTTCAAGAGAGATAAAA---TC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
*
56331 TGTTTCAAGGGAAACTA--TCAAGAGAGACAAAA--TT-
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
56365 TGTTTCAAGGGAAACTATCTCAA-CTGAGACAAAA--TT-
1 TGTTTCAAGGGAAACTATCTCAAGC-GAGACAAAATCTTC
* * * *
56401 TGTTTCAAGGGAAATTGTCTCAAGTGAGCCAAAA--TT-
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* * * * * *
56437 TGTTTAAAGGAAAAACAATCTCGAGTGAGATAAAATCTTC
1 TGTTTCAAGG-GAAACTATCTCAAGCGAGACAAAATCTTC
* * **
56477 TGTTTCAAGTGAAACTATCTCAAGAGAGATGAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
*
56516 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* *
56555 AGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATATTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
56594 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* *
56633 TGTTTCAAGGGAAACTATCTCAAGCAAGATAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
*
56672 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
*
56711 TGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATCTTC
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* *
56750 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATATTT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* * *
56789 TGTTTAAAGAGAAACTATCTCAAGCGAGACAAAATCTTA
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* *
56828 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* * *
56867 TGTTTCAAGGGAAACTATCTCAAGCGAGATAAAATATTA
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* * * *
56906 TGTTTCAAGGGAAACAATCTCAAGCGAGATAAAATATTA
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* * *
56945 TGTTTCAAGGGAAACTATCTCAAGCGATATAAAATCTTA
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
* *
56984 TGTTTCAAGAGAAACTATCTCAAGCGAGATAAAATCTT
1 TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTT
57022 GTTTTAAGAA
Statistics
Matches: 691, Mismatches: 62, Indels: 34
0.88 0.08 0.04
Matches are distributed among these distances:
34 31 0.04
35 1 0.00
36 100 0.14
37 17 0.02
39 504 0.73
40 8 0.01
42 5 0.01
44 2 0.00
45 23 0.03
ACGTcount: A:0.39, C:0.16, G:0.18, T:0.27
Consensus pattern (39 bp):
TGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTC
Found at i:57082 original size:117 final size:116
Alignment explanation
Indices: 56367--57130 Score: 512
Period size: 117 Copynumber: 6.6 Consensus size: 116
56357 ACAAAATTTG
* * * * * * *
56367 TTTCAAGGGAAACTATCTCAA-CTGAGACAAAA--TTTGTTTCAAGGGAAATTGTCTCAAGTGAG
1 TTTCAAGGAAAAATATCTCAAGC-GAGATAAAATCTTTGTTTCAAGAGAAACTATCTCAAGCGAG
** * * ** * * * *
56429 CCAAAAT--T-TGTTTAAAGGAAAAACAATCTCGAGTGAGATAAAATCTTCTG
65 ATAAAATACTATGTTTCAA-GAAAAACAATCTCAAGCCAAATAAAATATTATC
* * * * *
56479 TTTCAAGTG-AAACTATCTCAAGAGAGATGAAATCTTCTGTTTCAAGGGAAACTATCTCAAGAGA
1 TTTCAAG-GAAAAATATCTCAAGCGAGATAAAATCTT-TGTTTCAAGAGAAACTATCTCAAGCGA
* ** * * * * * *
56543 GACAAAAT-CT-TCAGTTTCAAGGGAAACTATCTCAAGCGAGACAAAATATTCTG
64 GATAAAATACTAT--GTTTCAAGAAAAACAATCTCAAGCCAAATAAAATATTATC
* * * * *
56596 TTTCAAGGGAAACTATCTCAAGCGAGACAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGCAAG
1 TTTCAAGGAAAAATATCTCAAGCGAGATAAAATCTT-TGTTTCAAGAGAAACTATCTCAAGCGAG
* ** * ** * * * * *
56661 ATAAAAT-CTTCTGTTTCAAGGGAAACTATCTCAAGAGAGACAAAATCTTCTG
65 ATAAAATAC-TATGTTTCAAGAAAAACAATCTCAAGCCAAATAAAATATTATC
* * * * *
56713 TTTCAAGGGAAACTATCTCAAGAGAGACAAAATCTTCTGTTTCAAGGGAAACTATCTCAAGCGAG
1 TTTCAAGGAAAAATATCTCAAGCGAGATAAAATCTT-TGTTTCAAGAGAAACTATCTCAAGCGAG
* * * * * * * * * * *
56778 ACAAAATATTTTGTTTAAAGAGAAACTATCTCAAGCGAGACAAAATCTTATG
65 ATAAAATACTATGTTTCAAGAAAAACAATCTCAAGCCAAATAAAATATTATC
* * *
56830 TTTCAAGGGAAACTATCTCAAGCGAGATAAAATCTTTTGTTTCAAGGGAAACTATCTCAAGCGAG
1 TTTCAAGGAAAAATATCTCAAGCGAGATAAAATC-TTTGTTTCAAGAGAAACTATCTCAAGCGAG
* ** * * *
56895 ATAAAATATTATGTTTCAAGGGAAACAATCTCAAGCGAGATAAAATATTATG
65 ATAAAATACTATGTTTCAAGAAAAACAATCTCAAGCCAAATAAAATATTATC
* * *
56947 TTTCAAGGGAAACTATCTCAAGCGATATAAAATCTTATGTTTCAAGAGAAACTATCTCAAGCGAG
1 TTTCAAGGAAAAATATCTCAAGCGAGATAAAATCTT-TGTTTCAAGAGAAACTATCTCAAGCGAG
* * ** * *
57012 ATAAAAT-CT-TGTTTTAAGAAAAATAATCTTGAGCCAAATGAAATATTCTTC
65 ATAAAATACTATGTTTCAAGAAAAACAATCTCAAGCCAAATAAAATATT-ATC
* * * * * * * *
57063 TTTCGAGTAAAAATCATCTCAAGCGAGA-CAAATC-TTGTTTTAAGAAAAACAATCTCCAGTGAG
1 TTTCAAGGAAAAAT-ATCTCAAGCGAGATAAAATCTTTGTTTCAAGAGAAACTATCTCAAGCGAG
57126 ATAAA
65 ATAAA
57131 TCCTCCATAT
Statistics
Matches: 570, Mismatches: 66, Indels: 30
0.86 0.10 0.05
Matches are distributed among these distances:
112 26 0.05
113 1 0.00
114 30 0.05
115 61 0.11
116 22 0.04
117 420 0.74
118 9 0.02
119 1 0.00
ACGTcount: A:0.40, C:0.16, G:0.17, T:0.28
Consensus pattern (116 bp):
TTTCAAGGAAAAATATCTCAAGCGAGATAAAATCTTTGTTTCAAGAGAAACTATCTCAAGCGAGA
TAAAATACTATGTTTCAAGAAAAACAATCTCAAGCCAAATAAAATATTATC
Found at i:64582 original size:9 final size:9
Alignment explanation
Indices: 64570--64600 Score: 53
Period size: 9 Copynumber: 3.4 Consensus size: 9
64560 GTAATAATTT
64570 TATTAATAA
1 TATTAATAA
64579 TATTAATAA
1 TATTAATAA
*
64588 TATTAATGA
1 TATTAATAA
64597 TATT
1 TATT
64601 TTTTAAGCCC
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
9 21 1.00
ACGTcount: A:0.48, C:0.00, G:0.03, T:0.48
Consensus pattern (9 bp):
TATTAATAA
Found at i:65827 original size:32 final size:32
Alignment explanation
Indices: 65786--65973 Score: 181
Period size: 32 Copynumber: 5.9 Consensus size: 32
65776 AGGGGCTTTT
* * *
65786 AGGCCCCGAGATGTTCCCTTGAGTAGGCTCTC
1 AGGCCCCAAGATATTCCCTTGAGTAGGCTCTA
* * *
65818 AGGCCCCGAGATATTTCCCTTTG-GTAGGTTCTG
1 AGGCCCCAAGATA-TTCCC-TTGAGTAGGCTCTA
* * *
65851 AGGCCCTAAGATATT-CCTTGGGTAGGCTATA
1 AGGCCCCAAGATATTCCCTTGAGTAGGCTCTA
65882 AGGCCCCAATG-TATTCCCTT-AGGTAGGCTCTA
1 AGGCCCCAA-GATATTCCCTTGA-GTAGGCTCTA
*
65914 AGGCCCCAAGATATT-CCTTGGGTAGGCTCTA
1 AGGCCCCAAGATATTCCCTTGAGTAGGCTCTA
* *
65945 AGGCCCCAAGGTATTCTCTT-AGGTAGGCT
1 AGGCCCCAAGATATTCCCTTGA-GTAGGCT
65974 TGAACTTTTG
Statistics
Matches: 131, Mismatches: 15, Indels: 20
0.79 0.09 0.12
Matches are distributed among these distances:
30 3 0.02
31 50 0.38
32 51 0.39
33 24 0.18
34 3 0.02
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (32 bp):
AGGCCCCAAGATATTCCCTTGAGTAGGCTCTA
Found at i:65886 original size:31 final size:31
Alignment explanation
Indices: 65786--65973 Score: 191
Period size: 31 Copynumber: 5.9 Consensus size: 31
65776 AGGGGCTTTT
* * *
65786 AGGCCCCGAGATGTTCCCTT-GAGTAGGCTCTC
1 AGGCCCCAAGATATT-CCTTAG-GTAGGCTCTA
* * * *
65818 AGGCCCCGAGATATTTCCCTTTGGTAGGTTCTG
1 AGGCCCCAAGATA-TT-CCTTAGGTAGGCTCTA
* * *
65851 AGGCCCTAAGATATTCCTTGGGTAGGCTATA
1 AGGCCCCAAGATATTCCTTAGGTAGGCTCTA
65882 AGGCCCCAATG-TATTCCCTTAGGTAGGCTCTA
1 AGGCCCCAA-GATATT-CCTTAGGTAGGCTCTA
*
65914 AGGCCCCAAGATATTCCTTGGGTAGGCTCTA
1 AGGCCCCAAGATATTCCTTAGGTAGGCTCTA
*
65945 AGGCCCCAAGGTATTCTCTTAGGTAGGCT
1 AGGCCCCAAGATATTC-CTTAGGTAGGCT
65974 TGAACTTTTG
Statistics
Matches: 135, Mismatches: 15, Indels: 12
0.83 0.09 0.07
Matches are distributed among these distances:
31 55 0.41
32 53 0.39
33 26 0.19
34 1 0.01
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (31 bp):
AGGCCCCAAGATATTCCTTAGGTAGGCTCTA
Found at i:65919 original size:63 final size:63
Alignment explanation
Indices: 65786--65973 Score: 232
Period size: 63 Copynumber: 3.0 Consensus size: 63
65776 AGGGGCTTTT
* * * * * * * * * *
65786 AGGCCCCGAGATGTTCCCTTGAGTAGGCTCTCAGGCCCCGAGATATTTCCCTTTGGTAGGTTCTG
1 AGGCCCCAAGATATT-CCTTGGGTAGGCTATAAGGCCCCAAGGTA-TTCCCTTAGGTAGGCTCTA
* *
65851 AGGCCCTAAGATATTCCTTGGGTAGGCTATAAGGCCCCAATGTATTCCCTTAGGTAGGCTCTA
1 AGGCCCCAAGATATTCCTTGGGTAGGCTATAAGGCCCCAAGGTATTCCCTTAGGTAGGCTCTA
* *
65914 AGGCCCCAAGATATTCCTTGGGTAGGCTCTAAGGCCCCAAGGTATTCTCTTAGGTAGGCT
1 AGGCCCCAAGATATTCCTTGGGTAGGCTATAAGGCCCCAAGGTATTCCCTTAGGTAGGCT
65974 TGAACTTTTG
Statistics
Matches: 107, Mismatches: 16, Indels: 2
0.86 0.13 0.02
Matches are distributed among these distances:
63 72 0.67
64 23 0.21
65 12 0.11
ACGTcount: A:0.20, C:0.26, G:0.26, T:0.28
Consensus pattern (63 bp):
AGGCCCCAAGATATTCCTTGGGTAGGCTATAAGGCCCCAAGGTATTCCCTTAGGTAGGCTCTA
Found at i:67070 original size:19 final size:20
Alignment explanation
Indices: 67046--67086 Score: 66
Period size: 20 Copynumber: 2.1 Consensus size: 20
67036 GAATATCATT
67046 AAAAATAAT-TAAATTGATA
1 AAAAATAATATAAATTGATA
*
67065 AAAAATAATATAAATTGCTA
1 AAAAATAATATAAATTGATA
67085 AA
1 AA
67087 TTTAATAAAT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
19 9 0.45
20 11 0.55
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.29
Consensus pattern (20 bp):
AAAAATAATATAAATTGATA
Found at i:73133 original size:21 final size:21
Alignment explanation
Indices: 73109--73206 Score: 62
Period size: 19 Copynumber: 4.7 Consensus size: 21
73099 TTTTATAATG
73109 TTAAAATATATTATTTAATTA
1 TTAAAATATATTATTTAATTA
* *
73130 TTAAAAATATAGTA-TT-ATTC
1 TT-AAAATATATTATTTAATTA
* * *
73150 TAAAAAAATATTATTTTAATAAA
1 TTAAAATATATTA-TTTAAT-TA
* *
73173 TTAAAATATA--A-TAAATGA
1 TTAAAATATATTATTTAATTA
73191 TTATAAATATATTATT
1 TTA-AAATATATTATT
73207 ATAAAATATT
Statistics
Matches: 57, Mismatches: 11, Indels: 17
0.67 0.13 0.20
Matches are distributed among these distances:
18 4 0.07
19 20 0.35
20 4 0.07
21 8 0.14
22 13 0.23
23 8 0.14
ACGTcount: A:0.52, C:0.01, G:0.02, T:0.45
Consensus pattern (21 bp):
TTAAAATATATTATTTAATTA
Found at i:80731 original size:23 final size:22
Alignment explanation
Indices: 80689--80739 Score: 68
Period size: 23 Copynumber: 2.3 Consensus size: 22
80679 CAATTAAAAT
*
80689 TTAT-TAAATTATTTTTTAATA
1 TTATATAAATAATTTTTTAATA
80710 TTATATAAATAATATTTTTAATA
1 TTATATAAATAAT-TTTTTAATA
*
80733 TTTTATA
1 TTATATA
80740 TTTATATAAT
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
21 4 0.15
22 7 0.27
23 15 0.58
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (22 bp):
TTATATAAATAATTTTTTAATA
Found at i:80738 original size:25 final size:23
Alignment explanation
Indices: 80682--80740 Score: 68
Period size: 22 Copynumber: 2.6 Consensus size: 23
80672 TTTAATTCAA
* *
80682 TTAAAATTTAT-TAAATTATTTT
1 TTAATATTTATATAAATAATTTT
80704 TTAATA-TTATATAAATAATATTT
1 TTAATATTTATATAAATAAT-TTT
80727 TTAATATTTTATAT
1 TTAATA-TTTATAT
80741 TTATATAATC
Statistics
Matches: 31, Mismatches: 2, Indels: 5
0.82 0.05 0.13
Matches are distributed among these distances:
21 4 0.13
22 12 0.39
23 9 0.29
25 6 0.19
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (23 bp):
TTAATATTTATATAAATAATTTT
Found at i:81125 original size:21 final size:21
Alignment explanation
Indices: 81101--81153 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
81091 ATTCTGACTA
*
81101 TCGCATTGTGATTTTCCAAAT
1 TCGCATTGCGATTTTCCAAAT
* *
81122 TCGCGTTGCGATTTTCCTAAT
1 TCGCATTGCGATTTTCCAAAT
*
81143 TCGCAATGCGA
1 TCGCATTGCGA
81154 ATACGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.21, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTCCAAAT
Found at i:81168 original size:20 final size:20
Alignment explanation
Indices: 81143--81273 Score: 147
Period size: 20 Copynumber: 6.5 Consensus size: 20
81133 TTTTCCTAAT
81143 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
** ** *
81163 TCGCAACACGAATTTGGAAAA
1 TCGCAATGCGAA-TACGTAAA
* *
81184 TCGTAATGCGATTACG-AAA
1 TCGCAATGCGAATACGTAAA
* ** *
81203 TCGCAACGCGAATTGGAAAA
1 TCGCAATGCGAATACGTAAA
81223 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
81243 TCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAA
81263 TCGCAATGCGA
1 TCGCAATGCGA
81274 TTTACATAGC
Statistics
Matches: 89, Mismatches: 20, Indels: 4
0.79 0.18 0.04
Matches are distributed among these distances:
19 14 0.16
20 62 0.70
21 13 0.15
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (20 bp):
TCGCAATGCGAATACGTAAA
Found at i:81206 original size:40 final size:40
Alignment explanation
Indices: 81143--81273 Score: 174
Period size: 40 Copynumber: 3.3 Consensus size: 40
81133 TTTTCCTAAT
81143 TCGCAATGCGAATACGTAAATCGCAACACGAATTTGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAACACGAA-TTGGAAAA
* * *
81184 TCGTAATGCGATTACG-AAATCGCAACGCGAATTGGAAAA
1 TCGCAATGCGAATACGTAAATCGCAACACGAATTGGAAAA
** ** *
81223 TCGCAATGCGAATACGTAAATCGCAATGCGAATACGTAAA
1 TCGCAATGCGAATACGTAAATCGCAACACGAATTGGAAAA
81263 TCGCAATGCGA
1 TCGCAATGCGA
81274 TTTACATAGC
Statistics
Matches: 80, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
39 22 0.28
40 44 0.55
41 14 0.17
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (40 bp):
TCGCAATGCGAATACGTAAATCGCAACACGAATTGGAAAA
Found at i:81474 original size:22 final size:21
Alignment explanation
Indices: 81449--81511 Score: 74
Period size: 22 Copynumber: 2.9 Consensus size: 21
81439 GGCGACATCC
81449 GTCCCTATCTCCGACGAAATCA
1 GTCCC-ATCTCCGACGAAATCA
*
81471 GTCCCCATCTCCGACGATATCA
1 GT-CCCATCTCCGACGAAATCA
*
81493 -TCTCCATCTCCGGCGAAAT
1 GTC-CCATCTCCGACGAAAT
81512 TATTCACGGT
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
20 1 0.03
21 15 0.42
22 17 0.47
23 3 0.08
ACGTcount: A:0.24, C:0.38, G:0.14, T:0.24
Consensus pattern (21 bp):
GTCCCATCTCCGACGAAATCA
Found at i:81824 original size:12 final size:12
Alignment explanation
Indices: 81807--81831 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
81797 TTCAATTTTA
81807 GTATTTGAAACC
1 GTATTTGAAACC
81819 GTATTTGAAACC
1 GTATTTGAAACC
81831 G
1 G
81832 AGAATGACTA
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:0.32, C:0.16, G:0.20, T:0.32
Consensus pattern (12 bp):
GTATTTGAAACC
Found at i:81916 original size:20 final size:20
Alignment explanation
Indices: 81891--81940 Score: 73
Period size: 20 Copynumber: 2.5 Consensus size: 20
81881 TGCGATTCTT
81891 GCGTTGCGATAGTCAAATTC
1 GCGTTGCGATAGTCAAATTC
**
81911 GCGTTGCGATAGTCATTTTC
1 GCGTTGCGATAGTCAAATTC
*
81931 GTGTTGCGAT
1 GCGTTGCGAT
81941 TTTCATTTTC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.18, C:0.18, G:0.28, T:0.36
Consensus pattern (20 bp):
GCGTTGCGATAGTCAAATTC
Found at i:81946 original size:20 final size:20
Alignment explanation
Indices: 81908--81962 Score: 83
Period size: 20 Copynumber: 2.8 Consensus size: 20
81898 GATAGTCAAA
* **
81908 TTCGCGTTGCGATAGTCATT
1 TTCGTGTTGCGATTTTCATT
81928 TTCGTGTTGCGATTTTCATT
1 TTCGTGTTGCGATTTTCATT
81948 TTCGTGTTGCGATTT
1 TTCGTGTTGCGATTT
81963 AAAGTTTCAG
Statistics
Matches: 32, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 32 1.00
ACGTcount: A:0.11, C:0.16, G:0.24, T:0.49
Consensus pattern (20 bp):
TTCGTGTTGCGATTTTCATT
Found at i:81970 original size:20 final size:20
Alignment explanation
Indices: 81927--81970 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
81917 CGATAGTCAT
** *
81927 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
81947 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
81967 TTTC
1 TTTC
81971 AGAAACTATT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:83776 original size:20 final size:20
Alignment explanation
Indices: 83751--83902 Score: 138
Period size: 20 Copynumber: 8.4 Consensus size: 20
83741 GATAGTTTAT
83751 TATCGCAATGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
*
83771 TATCGCAA--CG-AGA-GA-
1 TATCGCAATGCGAAAATGAC
83786 -ATCGCAATGCG-AAATGA-
1 TATCGCAATGCGAAAATGAC
*
83803 AATCGCAA--C-AAAA--A-
1 TATCGCAATGCGAAAATGAC
*
83817 T-T-GCAACGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
83835 TATCGCAATGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
83855 TATCGCAATGCGAAAATGAC
1 TATCGCAATGCGAAAATGAC
** *
83875 TATCGCAATGCGAATTTGAT
1 TATCGCAATGCGAAAATGAC
83895 TATCGCAA
1 TATCGCAA
83903 CGAAAGAATC
Statistics
Matches: 112, Mismatches: 7, Indels: 26
0.77 0.05 0.18
Matches are distributed among these distances:
12 4 0.04
13 1 0.01
14 9 0.08
15 4 0.04
16 10 0.09
17 5 0.04
18 10 0.09
19 1 0.01
20 68 0.61
ACGTcount: A:0.41, C:0.20, G:0.20, T:0.20
Consensus pattern (20 bp):
TATCGCAATGCGAAAATGAC
Found at i:83879 original size:40 final size:40
Alignment explanation
Indices: 83819--83940 Score: 132
Period size: 40 Copynumber: 3.2 Consensus size: 40
83809 AACAAAAATT
* *
83819 GCAACGCGAAAATGACTATCGCAATGCGAAAATGACTATC
1 GCAATGCGAAAATGACTATCGCAATGCGAAAATGAATATC
** *
83859 GCAATGCGAAAATGACTATCGCAATGCGAATTTGATTATC
1 GCAATGCGAAAATGACTATCGCAATGCGAAAATGAATATC
*
83899 GCAA--CG-AAA-GA--ATCGCAATGCG-AAATGAAAATC
1 GCAATGCGAAAATGACTATCGCAATGCGAAAATGAATATC
*
83932 GCATTGCGA
1 GCAATGCGA
83941 TTCTCTCGTT
Statistics
Matches: 70, Mismatches: 9, Indels: 10
0.79 0.10 0.11
Matches are distributed among these distances:
33 10 0.14
34 11 0.16
35 2 0.03
36 2 0.03
37 3 0.04
38 2 0.03
40 40 0.57
ACGTcount: A:0.39, C:0.20, G:0.21, T:0.20
Consensus pattern (40 bp):
GCAATGCGAAAATGACTATCGCAATGCGAAAATGAATATC
Found at i:84006 original size:20 final size:20
Alignment explanation
Indices: 83949--84015 Score: 89
Period size: 20 Copynumber: 3.4 Consensus size: 20
83939 GATTCTCTCG
* *
83949 TTGCGATAGTTAAATTCACA
1 TTGCGATAGTCAAATTCGCA
83969 TTGCGATAGTCAAATTCGCA
1 TTGCGATAGTCAAATTCGCA
** *
83989 TTGCGATAGTCATTTTCGCG
1 TTGCGATAGTCAAATTCGCA
84009 TTGCGAT
1 TTGCGAT
84016 TTTAAGTTTC
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.25, C:0.18, G:0.21, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCAAATTCGCA
Found at i:85923 original size:14 final size:14
Alignment explanation
Indices: 85891--85924 Score: 50
Period size: 14 Copynumber: 2.4 Consensus size: 14
85881 GATTGTTTAA
85891 TTGATTTGTAAAAG
1 TTGATTTGTAAAAG
* *
85905 ATGATTTGTAAATG
1 TTGATTTGTAAAAG
85919 TTGATT
1 TTGATT
85925 GTTTAATTGA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.32, C:0.00, G:0.21, T:0.47
Consensus pattern (14 bp):
TTGATTTGTAAAAG
Found at i:86067 original size:14 final size:14
Alignment explanation
Indices: 86048--86101 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
86038 GGAAATGACT
86048 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
*
86062 ATCGCAATGCGAAATGAAA
1 ATCGCAA--CG--A-GAGA
86081 ATCGCAACGAGAGA
1 ATCGCAACGAGAGA
86095 ATCGCAA
1 ATCGCAA
86102 AGCAAAATGA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
14 17 0.52
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.30
ACGTcount: A:0.44, C:0.20, G:0.24, T:0.11
Consensus pattern (14 bp):
ATCGCAACGAGAGA
Found at i:86085 original size:19 final size:18
Alignment explanation
Indices: 86061--86120 Score: 56
Period size: 19 Copynumber: 3.4 Consensus size: 18
86051 GCAACGAGAG
86061 AATCGCAATGCGAAATGAA
1 AATCGCAA-GCGAAATGAA
*
86080 AATCGCAA-CG--A-GAG
1 AATCGCAAGCGAAATGAA
*
86094 AATCGCAAAGCAAAATGAA
1 AATCGC-AAGCGAAATGAA
86113 AATCGCAA
1 AATCGCAA
86121 CCCGAAACTA
Statistics
Matches: 33, Mismatches: 3, Indels: 11
0.70 0.06 0.23
Matches are distributed among these distances:
14 8 0.24
15 3 0.09
16 1 0.03
17 2 0.06
18 3 0.09
19 16 0.48
ACGTcount: A:0.50, C:0.18, G:0.20, T:0.12
Consensus pattern (18 bp):
AATCGCAAGCGAAATGAA
Found at i:86085 original size:33 final size:33
Alignment explanation
Indices: 86039--86121 Score: 130
Period size: 33 Copynumber: 2.5 Consensus size: 33
86029 TCGTAACGCG
** *
86039 GAAATGACTATCGCAACGAGAGAATCGCAATGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAAAGC
86072 GAAATGAAAATCGCAACGAGAGAATCGCAAAGC
1 GAAATGAAAATCGCAACGAGAGAATCGCAAAGC
*
86105 AAAATGAAAATCGCAAC
1 GAAATGAAAATCGCAAC
86122 CCGAAACTAA
Statistics
Matches: 46, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 46 1.00
ACGTcount: A:0.47, C:0.19, G:0.22, T:0.12
Consensus pattern (33 bp):
GAAATGAAAATCGCAACGAGAGAATCGCAAAGC
Found at i:86227 original size:20 final size:20
Alignment explanation
Indices: 86204--86293 Score: 123
Period size: 20 Copynumber: 4.6 Consensus size: 20
86194 GATTCTCTCT
86204 TTGCGATAGTCATTTCCGCG
1 TTGCGATAGTCATTTCCGCG
*
86224 TTGCGATAG--AATTCCGCG
1 TTGCGATAGTCATTTCCGCG
* *
86242 TTGCGATAGTCATTTCTGTG
1 TTGCGATAGTCATTTCCGCG
86262 TTGCGATAGTCATATT-CGCG
1 TTGCGATAGTCAT-TTCCGCG
86282 TTGCGATAGTCA
1 TTGCGATAGTCA
86294 AATGAATGTC
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
18 17 0.28
20 42 0.69
21 2 0.03
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (20 bp):
TTGCGATAGTCATTTCCGCG
Found at i:86248 original size:38 final size:39
Alignment explanation
Indices: 86204--86293 Score: 130
Period size: 38 Copynumber: 2.3 Consensus size: 39
86194 GATTCTCTCT
86204 TTGCGATAGTCATTTCCGCGTTGCGATAG-A-ATTCCGCG
1 TTGCGATAGTCATTTCCGCGTTGCGATAGCATATT-CGCG
* *
86242 TTGCGATAGTCATTTCTGTGTTGCGATAGTCATATTCGCG
1 TTGCGATAGTCATTTCCGCGTTGCGATAG-CATATTCGCG
86282 TTGCGATAGTCA
1 TTGCGATAGTCA
86294 AATGAATGTC
Statistics
Matches: 47, Mismatches: 2, Indels: 4
0.89 0.04 0.08
Matches are distributed among these distances:
38 27 0.57
40 17 0.36
41 3 0.06
ACGTcount: A:0.19, C:0.20, G:0.26, T:0.36
Consensus pattern (39 bp):
TTGCGATAGTCATTTCCGCGTTGCGATAGCATATTCGCG
Done.