Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005531.1 Hibiscus syriacus cultivar Beakdansim tig00012789_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: 79096
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.35
Found at i:5281 original size:30 final size:30
Alignment explanation
Indices: 5232--5292 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
5222 ACTTTGGATT
*
5232 TATTACAAAATAATCATTAACTTTGATCAAA
1 TATTACAAAATAATCATTAAATTT-ATCAAA
* *
5263 TATTA-AAAATGATTATTAAATTTATCAAA
1 TATTACAAAATAATCATTAAATTTATCAAA
5292 T
1 T
5293 TTTTACATTT
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
29 7 0.26
30 15 0.56
31 5 0.19
ACGTcount: A:0.49, C:0.08, G:0.03, T:0.39
Consensus pattern (30 bp):
TATTACAAAATAATCATTAAATTTATCAAA
Found at i:16272 original size:51 final size:51
Alignment explanation
Indices: 16210--17108 Score: 610
Period size: 51 Copynumber: 17.8 Consensus size: 51
16200 TGAACTCACA
** * * *
16210 ACAAACTTACACTGGTGAAATTTAACACATAATTACAGCATTAATCACATC
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCCAGTATTAATCACATC
* * * * * *
16261 ACATACTTACACTAGTC-AATTTAACATATAGTTCTAATATTGAACTCACA--
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCCAGTATT-AA-TCACATC
* * * * * *
16311 ACAGACTTACACCAGTTAAATTTAACACTTAATTCCAGCATTAATCTCATT
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCCAGTATTAATCACATC
** * *
16362 ACATGCTTACACTAGTC-AATTTAACATATAATT--ATGATATTGAACTCACAT-
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCCA-G-TATT-AA-TCACATC
* * * * * * *
16413 -CAAACTTACACCAGTCAAATTTAACATATAATTTCGGCATCAATCTCATT
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCCAGTATTAATCACATC
* * *
16463 ACAGACTTACACC-GATCAAATTTAACATATAATTCCAATATTGAACTCACA--
1 ACAAACTTACACCAG-TCAAATTTAACACATAATTCCAGTATT-AA-TCACATC
* * * * *
16514 ACAGACTTACACCAGTTAAATTTAACACATAATACCAGCATTAATCTCA-C
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCCAGTATTAATCACATC
* * * * * *
16564 ACATACTTACACCAATC-GATTTAACATATGATTCCAATATTGAACTCACA--
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCCAGTATT-AA-TCACATC
** *
16614 ACAAACTTACACCAGTCAAATTTAACACATAATTTTAGTATTAATCTCATC
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCCAGTATTAATCACATC
* * **
16665 ACAAA-TGTACACCAGTCAAATTCAACACATAATTCTAGTATTAATTTCATC
1 ACAAACT-TACACCAGTCAAATTTAACACATAATTCCAGTATTAATCACATC
*
16716 ACAAACTTACACCAGTC-AATTTAACATATAATTCCTA-TATTGAACTCACA--
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCC-AGTATT-AA-TCACATC
* ** *
16766 ACAAACTTACACTAGTCAAATTTAACACATAATTCCAACATTAATCTCATC
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCCAGTATTAATCACATC
* * * * * *
16817 ACAAATTTACACC-GACCAAATTTAACATATAATTCTAATATTTAACTTACA--
1 ACAAACTTACACCAG-TCAAATTTAACACATAATTCCAGTA-TTAA-TCACATC
* * * ** **
16868 ACAAACTTGCACCAATCAAATTTAACATAT-A-TCCAACATTAATTTCATC
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCCAGTATTAATCACATC
* * * * *
16917 ACATACTTACACTAGTCAAATTTAACATATAATTACAATATTGAACTCACA--
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCCAGTATT-AA-TCACATC
* * * *** *
16968 AAAAAATTACACCAGTAAAATTTAACACATAATTCCAACGTTAATCTCATC
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCCAGTATTAATCACATC
* * * * * **
17019 ACAAACTTACACTACTCAAATTTAACATATAGTTCCAATATTAATCTTATC
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCCAGTATTAATCACATC
* * ** *
17070 ATAGACTTACACCAGTCAAATTTGTCACATAATTTCAGT
1 ACAAACTTACACCAGTCAAATTTAACACATAATTCCAGT
17109 GGTGGTAATT
Statistics
Matches: 672, Mismatches: 131, Indels: 90
0.75 0.15 0.10
Matches are distributed among these distances:
47 4 0.01
48 5 0.01
49 75 0.11
50 146 0.22
51 408 0.61
52 24 0.04
53 10 0.01
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31
Consensus pattern (51 bp):
ACAAACTTACACCAGTCAAATTTAACACATAATTCCAGTATTAATCACATC
Found at i:16321 original size:101 final size:101
Alignment explanation
Indices: 16189--16850 Score: 675
Period size: 101 Copynumber: 6.5 Consensus size: 101
16179 TTAAAAAAAG
** *
16189 AATTCTAATATTGAACTCACAACAAACTTACACTGGTGAAATTTAACACATAATTACAGCATTAA
1 AATTCTAATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATAATTACAGCATTAA
*
16254 TCACATCACATACTTACACTAGTCAATTTAACATAT
66 TCTCATCACATACTTACACTAGTCAATTTAACATAT
* * * * *
16290 AGTTCTAATATTGAACTCACAACAGACTTACACCAGTTAAATTTAACACTTAATTCCAGCATTAA
1 AATTCTAATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATAATTACAGCATTAA
* *
16355 TCTCATTACATGCTTACACTAGTCAATTTAACATAT
66 TCTCATCACATACTTACACTAGTCAATTTAACATAT
* * * * * * *
16391 AATTATGATATTGAACTCACATCAAACTTACACCAGTCAAATTTAACATATAATTTCGGCATCAA
1 AATTCTAATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATAATTACAGCATTAA
* * *
16456 TCTCATTACAGACTTACAC-CGATCAAATTTAACATAT
66 TCTCATCACATACTTACACTAG-TC-AATTTAACATAT
* * *
16493 AATTCCAATATTGAACTCACAACAGACTTACACCAGTTAAATTTAACACATAA-TACCAGCATTA
1 AATTCTAATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATAATTA-CAGCATTA
* * *
16557 ATCTCA-CACATACTTACACCAATCGATTTAACATAT
65 ATCTCATCACATACTTACACTAGTCAATTTAACATAT
* * ** *
16593 GATTCCAATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATAATTTTAGTATTAA
1 AATTCTAATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATAATTACAGCATTAA
* * * *
16658 TCTCATCACA-AATGTACACCAGTCAAATTCAACACAT
66 TCTCATCACATACT-TACACTAGTC-AATTTAACATAT
* * * * *
16695 AATTCTAGTATT-AATTTCATC-ACAAACTTACACCAGTC-AATTTAACATATAATTCCTA-TAT
1 AATTCTAATATTGAA-CTCA-CAACAAACTTACACCAGTCAAATTTAACACATAATTAC-AGCAT
* *
16756 TGAA-CTCA-CAACAAACTTACACTAGTCAAATTTAACACAT
63 T-AATCTCATC-ACATACTTACACTAGTC-AATTTAACATAT
* * * * *
16796 AATTCCAACATT-AATCTCATC-ACAAATTTACACC-GACCAAATTTAACATATAATT
1 AATTCTAATATTGAA-CTCA-CAACAAACTTACACCAG-TCAAATTTAACACATAATT
16851 CTAATATTTA
Statistics
Matches: 479, Mismatches: 66, Indels: 31
0.83 0.11 0.05
Matches are distributed among these distances:
100 78 0.16
101 271 0.57
102 129 0.27
103 1 0.00
ACGTcount: A:0.41, C:0.23, G:0.05, T:0.31
Consensus pattern (101 bp):
AATTCTAATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATAATTACAGCATTAA
TCTCATCACATACTTACACTAGTCAATTTAACATAT
Found at i:16467 original size:152 final size:152
Alignment explanation
Indices: 16227--17103 Score: 670
Period size: 151 Copynumber: 5.8 Consensus size: 152
16217 TACACTGGTG
* * * * * * *
16227 AAATTTAACACATAATTACAGCATTAATCACATCACATACTTACACTAGTCAATTTAACATATAG
1 AAATTTAACACATAATTATAGTATTAATCTCA-CACAAACTTACACCAATCAATTTAACATATAA
* * * * *
16292 TTCTAATATTGAACTCACAACAGACTTACACCAGTTAAATTTAACACTTAATTCCAGCATTAATC
65 TTCCAATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATAATTCCAACATTAATC
* *
16357 TCATTACATGCTTACACTAG-TC
130 TCATCACATGCTTACACCAGATC
* *
16379 -AATTTAACATATAATTAT-GATATTGAA-CTCACATCAAACTTACACCAGTCAAATTTAACATA
1 AAATTTAACACATAATTATAG-TATT-AATCTCACA-CAAACTTACACCAATC-AATTTAACATA
* *** * ** * * *
16441 TAATTTCGGCA-TCAATCTCATTACAGACTTACACC-GATCAAATTTAACATATAATTCCAATAT
62 TAATTCCAATATTGAA-CTCACAACAAACTTACACCAG-TCAAATTTAACACATAATTCCAACAT
*
16504 TGAA-CTCA-CAACA-GACTTACACCAG-TT
125 T-AATCTCATC-ACATG-CTTACACCAGATC
* * * * *
16531 AAATTTAACACATAA-TACCAGCATTAATCTCACACATACTTACACCAATCGATTTAACATATGA
1 AAATTTAACACATAATTA-TAGTATTAATCTCACACAAACTTACACCAATCAATTTAACATATAA
** **
16595 TTCCAATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATAATTTTAGTATTAATC
65 TTCCAATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATAATTCCAACATTAATC
16660 TCATCACAAATG--TACACCAG-TC
130 TCATCAC--ATGCTTACACCAGATC
* * * *
16682 AAATTCAACACATAATTCTAGTATTAATTTCATCACAAACTTACACCAGTCAATTTAACATATAA
1 AAATTTAACACATAATTATAGTATTAATCTCA-CACAAACTTACACCAATCAATTTAACATATAA
* *
16747 TTCCTATATTGAACTCACAACAAACTTACACTAGTCAAATTTAACACATAATTCCAACATTAATC
65 TTCCAATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATAATTCCAACATTAATC
*** *
16812 TCATCACAAATTTACACC-GACC
130 TCATCACATGCTTACACCAGATC
* * * * *
16834 AAATTTAACATATAATTCTAATATTTAA-CTTACAACAAACTTGCACCAATCAAATTTAACATAT
1 AAATTTAACACATAATTATAGTA-TTAATCTCAC-ACAAACTTACACCAATC-AATTTAACATAT
* * * * * * *
16898 -A-TCCAACATT-AATTTCATC-ACATACTTACACTAGTCAAATTTAACATATAATTACAATATT
63 AATTCCAATATTGAA-CTCA-CAACAAACTTACACCAGTCAAATTTAACACATAATTCCAACATT
* *** *
16959 GAA-CTCA-CAAAAAAATTACACCAG-TA
126 -AATCTCATC-ACATGCTTACACCAGATC
** *** * *
16985 AAATTTAACACATAATTCCAACGTTAATCTCATCACAAACTTACACTACTCAAATTTAACATATA
1 AAATTTAACACATAATTATAGTATTAATCTCA-CACAAACTTACACCAATC-AATTTAACATATA
* * * * **
17050 GTTCCAATATT-AATCTTATC-ATAGACTTACACCAGTCAAATTTGTCACATAATT
64 ATTCCAATATTGAA-CTCA-CAACAAACTTACACCAGTCAAATTTAACACATAATT
17104 TCAGTGGTGG
Statistics
Matches: 591, Mismatches: 97, Indels: 73
0.78 0.13 0.10
Matches are distributed among these distances:
150 13 0.02
151 250 0.42
152 242 0.41
153 84 0.14
154 2 0.00
ACGTcount: A:0.42, C:0.22, G:0.05, T:0.31
Consensus pattern (152 bp):
AAATTTAACACATAATTATAGTATTAATCTCACACAAACTTACACCAATCAATTTAACATATAAT
TCCAATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATAATTCCAACATTAATCT
CATCACATGCTTACACCAGATC
Found at i:16891 original size:354 final size:354
Alignment explanation
Indices: 16315--17088 Score: 1000
Period size: 354 Copynumber: 2.2 Consensus size: 354
16305 CTCACAACAG
* * * * * ** *
16315 ACTTACACCAGTTAAATTTAACACTTAATTCCAGCATTAATCTCATTACATGCTTACACTAGTCA
1 ACTTACACCAGTCAAATTTAACACATAATTCCAGTATTAATTTCATCACAAACTTACACCAGTCA
* *
16380 ATTTAACATATAATTATGATATTGAACTCACATCAAACTTACACCAGTCAAATTTAACATATAAT
66 ATTTAACATATAATTATGATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATAAT
* ** * * *
16445 TTCGGCATCAATCTCATTACAGACTTACACCGATCAAATTTAACATATAATTCCAATATTGAACT
131 TCCAACATCAATCTCATCACAAACTTACACCGACCAAATTTAACATATAATTCCAATATTGAACT
* * * *
16510 CACAACAGACTTACACCAGTTAAATTTAACACATAATACCAGCATTAATCTCA-CACATACTTAC
196 CACAACAAACTTACACCAATCAAATTTAACACAT-AT-CCAACATTAATCTCATCACATACTTAC
* * * * * *
16574 ACCAATC-GATTTAACATATGATTCCAATATTGAACTCACAACAAACTTACACCAGTCAAATTTA
259 ACCAATCAAATTTAACATATAATTACAATATTGAACTCACAAAAAAATTACACCAGTAAAATTTA
** **
16638 ACACATAATTTTAGTATTAATCTCATCACAA
324 ACACATAATTCCAACATTAATCTCATCACAA
* *
16669 A-TGTACACCAGTCAAATTCAACACATAATTCTAGTATTAATTTCATCACAAACTTACACCAGTC
1 ACT-TACACCAGTCAAATTTAACACATAATTCCAGTATTAATTTCATCACAAACTTACACCAGTC
* *
16733 AATTTAACATATAATTCCT-ATATTGAACTCACAACAAACTTACACTAGTCAAATTTAACACATA
65 AATTTAACATATAATT-ATGATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATA
* * * *
16797 ATTCCAACATTAATCTCATCACAAATTTACACCGACCAAATTTAACATATAATTCTAATATTTAA
129 ATTCCAACATCAATCTCATCACAAACTTACACCGACCAAATTTAACATATAATTCCAATATTGAA
* * * *
16862 CTTACAACAAACTTGCACCAATCAAATTTAACATATATCCAACATTAATTTCATCACATACTTAC
194 CTCACAACAAACTTACACCAATCAAATTTAACACATATCCAACATTAATCTCATCACATACTTAC
* *
16927 ACTAGTCAAATTTAACATATAATTACAATATTGAACTCACAAAAAAATTACACCAGTAAAATTTA
259 ACCAATCAAATTTAACATATAATTACAATATTGAACTCACAAAAAAATTACACCAGTAAAATTTA
*
16992 ACACATAATTCCAACGTTAATCTCATCACAA
324 ACACATAATTCCAACATTAATCTCATCACAA
* * * * * * *
17023 ACTTACACTACTCAAATTTAACATATAGTTCCAATATTAATCTT-ATCATAGACTTACACCAGTC
1 ACTTACACCAGTCAAATTTAACACATAATTCCAGTATTAAT-TTCATCACAAACTTACACCAGTC
17087 AA
65 AA
17089 ATTTGTCACA
Statistics
Matches: 360, Mismatches: 54, Indels: 12
0.85 0.13 0.03
Matches are distributed among these distances:
352 13 0.04
353 19 0.05
354 324 0.90
355 4 0.01
ACGTcount: A:0.42, C:0.23, G:0.05, T:0.31
Consensus pattern (354 bp):
ACTTACACCAGTCAAATTTAACACATAATTCCAGTATTAATTTCATCACAAACTTACACCAGTCA
ATTTAACATATAATTATGATATTGAACTCACAACAAACTTACACCAGTCAAATTTAACACATAAT
TCCAACATCAATCTCATCACAAACTTACACCGACCAAATTTAACATATAATTCCAATATTGAACT
CACAACAAACTTACACCAATCAAATTTAACACATATCCAACATTAATCTCATCACATACTTACAC
CAATCAAATTTAACATATAATTACAATATTGAACTCACAAAAAAATTACACCAGTAAAATTTAAC
ACATAATTCCAACATTAATCTCATCACAA
Found at i:17091 original size:202 final size:202
Alignment explanation
Indices: 16413--17103 Score: 647
Period size: 202 Copynumber: 3.4 Consensus size: 202
16403 GAACTCACAT
* *** * * *
16413 CAAACTTACACCAGTCAAATTTAACATATAATT-TCGGCATCAATCTCATTACAGACTTACACC-
1 CAAACTTACACCACTCAAATTTAACATATAATTCT-AATATTAATCTTATCACA-ACTTACACCA
* * * * *
16476 GATCAAATTTAACATATAATTCCAATATTGAA-CTCA-CAACAGACTTACACCAGTTAAATTTAA
64 G-TCAAATTTAACACATAATTCCAACATT-AATTTCATC-ACAAACTTACACCAG-TCAATTTAA
* ** * * * * ** * *
16539 CACATAA-TACCAGCATT-AATCTCAC-ACATACTTACACCAAT-CGATTTAACATATGATTCCA
125 CATATAATTA-CAATATTGAA-CTCACAAAAAAATTACACCAGTAAAATTTAACACATAATTCCA
*
16600 ATATTGAA-CTCA-CAA
188 ACATT-AATCTCATC-A
* * * * * *
16615 CAAACTTACACCAGTCAAATTTAACACATAATTTTAGTATTAATCTCATCACAAATGTACACCAG
1 CAAACTTACACCACTCAAATTTAACATATAATTCTAATATTAATCTTATCACAACT-TACACCAG
* * **
16680 TCAAATTCAACACATAATTCTAGTATTAATTTCATCACAAACTTACACCAGTCAATTTAACATAT
65 TCAAATTTAACACATAATTCCAACATTAATTTCATCACAAACTTACACCAGTCAATTTAACATAT
* * * * * *
16745 AATTCCTATATTGAACTCACAACAAACTTACACTAGTCAAATTTAACACATAATTCCAACATTAA
130 AATTACAATATTGAACTCACAAAAAAATTACACCAGTAAAATTTAACACATAATTCCAACATTAA
16810 TCTCATCA
195 TCTCATCA
* *
16818 CAAATTTACACCGAC-CAAATTTAACATATAATTCTAATATTTAA-CTTA-CAACAAACTTGCAC
1 CAAACTTACACC-ACTCAAATTTAACATATAATTCTAATA-TTAATCTTATC-AC-AACTTACAC
* * * *
16880 CAATCAAATTTAACATAT-A-TCCAACATTAATTTCATCACATACTTACACTAGTCAAATTTAAC
62 CAGTCAAATTTAACACATAATTCCAACATTAATTTCATCACAAACTTACACCAGTC-AATTTAAC
*
16943 ATATAATTACAATATTGAACTCACAAAAAAATTACACCAGTAAAATTTAACACATAATTCCAACG
126 ATATAATTACAATATTGAACTCACAAAAAAATTACACCAGTAAAATTTAACACATAATTCCAACA
17008 TTAATCTCATCA
191 TTAATCTCATCA
* * * *
17020 CAAACTTACACTACTCAAATTTAACATATAGTTCCAATATTAATCTTATCATAGACTTACACCAG
1 CAAACTTACACCACTCAAATTTAACATATAATTCTAATATTAATCTTATCACA-ACTTACACCAG
**
17085 TCAAATTTGTCACATAATT
65 TCAAATTTAACACATAATT
17104 TCAGTGGTGG
Statistics
Matches: 408, Mismatches: 59, Indels: 42
0.80 0.12 0.08
Matches are distributed among these distances:
201 64 0.16
202 248 0.61
203 86 0.21
204 10 0.02
ACGTcount: A:0.42, C:0.23, G:0.04, T:0.31
Consensus pattern (202 bp):
CAAACTTACACCACTCAAATTTAACATATAATTCTAATATTAATCTTATCACAACTTACACCAGT
CAAATTTAACACATAATTCCAACATTAATTTCATCACAAACTTACACCAGTCAATTTAACATATA
ATTACAATATTGAACTCACAAAAAAATTACACCAGTAAAATTTAACACATAATTCCAACATTAAT
CTCATCA
Found at i:19113 original size:16 final size:16
Alignment explanation
Indices: 19078--19118 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
19068 GTTTACTTCA
19078 GAATGATT-AAACGCT
1 GAATGATTCAAACGCT
* *
19093 GAATGATTCAAATGTT
1 GAATGATTCAAACGCT
19109 GAATGATTCA
1 GAATGATTCA
19119 GAGGCTCTGA
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.39, C:0.10, G:0.20, T:0.32
Consensus pattern (16 bp):
GAATGATTCAAACGCT
Found at i:19131 original size:18 final size:17
Alignment explanation
Indices: 19078--19132 Score: 53
Period size: 16 Copynumber: 3.4 Consensus size: 17
19068 GTTTACTTCA
*
19078 GAATGATT-AAACG-CT
1 GAATGATTCAAAGGTCT
*
19093 GAATGATTCAAATGT-T
1 GAATGATTCAAAGGTCT
*
19109 GAATGATTCAGAGGCTCT
1 GAATGATTCAAAGG-TCT
19127 GAATGA
1 GAATGA
19133 ATTAGCTCTG
Statistics
Matches: 33, Mismatches: 3, Indels: 5
0.80 0.07 0.12
Matches are distributed among these distances:
15 8 0.24
16 17 0.52
17 1 0.03
18 7 0.21
ACGTcount: A:0.36, C:0.11, G:0.24, T:0.29
Consensus pattern (17 bp):
GAATGATTCAAAGGTCT
Found at i:20087 original size:20 final size:20
Alignment explanation
Indices: 20046--20090 Score: 56
Period size: 20 Copynumber: 2.2 Consensus size: 20
20036 AAATTCTATA
*
20046 TAAAAATCTAAAGATTTTTT
1 TAAAAATCTAAAGATTTATT
*
20066 TAAAAATCT-AATATATTATT
1 TAAAAATCTAAAGAT-TTATT
20086 TAAAA
1 TAAAA
20091 GCTCCTTTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 4 0.18
20 18 0.82
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.42
Consensus pattern (20 bp):
TAAAAATCTAAAGATTTATT
Found at i:25735 original size:25 final size:25
Alignment explanation
Indices: 25707--25754 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
25697 TACAAAATAA
25707 TCACACAACTATTCATTATGTTTGG
1 TCACACAACTATTCATTATGTTTGG
* *
25732 TCACCCGACTATTCATTATGTTT
1 TCACACAACTATTCATTATGTTT
25755 CAAACTCATA
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.25, C:0.23, G:0.10, T:0.42
Consensus pattern (25 bp):
TCACACAACTATTCATTATGTTTGG
Found at i:26488 original size:28 final size:28
Alignment explanation
Indices: 26421--26488 Score: 91
Period size: 28 Copynumber: 2.4 Consensus size: 28
26411 CCACTGTTTC
* * *
26421 TTTTGAGCACTGGCTCGACGACATAATG
1 TTTTAAGCATTGGCTCGACGACATAATA
* *
26449 TTTCAAGTATTGGCTCGACGACATAATA
1 TTTTAAGCATTGGCTCGACGACATAATA
26477 TTTTAAGCATTG
1 TTTTAAGCATTG
26489 ACTCAAAGAT
Statistics
Matches: 33, Mismatches: 7, Indels: 0
0.82 0.17 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.28, C:0.18, G:0.21, T:0.34
Consensus pattern (28 bp):
TTTTAAGCATTGGCTCGACGACATAATA
Found at i:26956 original size:17 final size:16
Alignment explanation
Indices: 26918--26967 Score: 64
Period size: 17 Copynumber: 3.0 Consensus size: 16
26908 AATCAAAATA
*
26918 TTAATTATTAAAATATT
1 TTAA-TATTATAATATT
*
26935 TTAATATTTTAATATT
1 TTAATATTATAATATT
26951 TCTAATATTATAATATT
1 T-TAATATTATAATATT
26968 ATAAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
16 11 0.38
17 18 0.62
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.56
Consensus pattern (16 bp):
TTAATATTATAATATT
Found at i:26958 original size:9 final size:8
Alignment explanation
Indices: 26929--26967 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
26919 TAATTATTAA
26929 AATATTTT
1 AATATTTT
26937 AATATTTT
1 AATATTTT
26945 AATATTTCT
1 AATATTT-T
*
26954 AATATTAT
1 AATATTTT
26962 AATATT
1 AATATT
26968 ATAAAAAAAA
Statistics
Matches: 29, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
8 22 0.76
9 7 0.24
ACGTcount: A:0.41, C:0.03, G:0.00, T:0.56
Consensus pattern (8 bp):
AATATTTT
Found at i:26968 original size:8 final size:8
Alignment explanation
Indices: 26914--26971 Score: 55
Period size: 8 Copynumber: 7.2 Consensus size: 8
26904 TTTTAATCAA
26914 AATATTA-
1 AATATTAT
* *
26921 ATTATTAA
1 AATATTAT
*
26929 AATATTTT
1 AATATTAT
*
26937 AATATTTT
1 AATATTAT
*
26945 AATATTTCT
1 AATA-TTAT
26954 AATATTAT
1 AATATTAT
26962 AATATTAT
1 AATATTAT
26970 AA
1 AA
26972 AAAAAATAGT
Statistics
Matches: 43, Mismatches: 6, Indels: 3
0.83 0.12 0.06
Matches are distributed among these distances:
7 6 0.14
8 30 0.70
9 7 0.16
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.52
Consensus pattern (8 bp):
AATATTAT
Found at i:28900 original size:21 final size:21
Alignment explanation
Indices: 28876--28917 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
28866 ATATATATGT
28876 TCAGTGGTCCTTCGGGACATA
1 TCAGTGGTCCTTCGGGACATA
*
28897 TCAGTGGTCTTTCGGGACATA
1 TCAGTGGTCCTTCGGGACATA
28918 GTGGTCATTT
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.19, C:0.21, G:0.29, T:0.31
Consensus pattern (21 bp):
TCAGTGGTCCTTCGGGACATA
Found at i:28922 original size:18 final size:19
Alignment explanation
Indices: 28876--28933 Score: 66
Period size: 21 Copynumber: 3.0 Consensus size: 19
28866 ATATATATGT
*
28876 TCAGTGGTCCTTCGGGACATA
1 TCAGTGGTCTTTCGGGAC--A
28897 TCAGTGGTCTTTCGGGACA
1 TCAGTGGTCTTTCGGGACA
28916 T-AGTGGTCATTT-GGGACA
1 TCAGTGGTC-TTTCGGGACA
28934 AATGTTCAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 5
0.85 0.02 0.12
Matches are distributed among these distances:
18 13 0.37
19 5 0.14
21 17 0.49
ACGTcount: A:0.19, C:0.19, G:0.31, T:0.31
Consensus pattern (19 bp):
TCAGTGGTCTTTCGGGACA
Found at i:35409 original size:2 final size:2
Alignment explanation
Indices: 35404--35439 Score: 72
Period size: 2 Copynumber: 18.0 Consensus size: 2
35394 ACACACACAC
35404 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
35440 TAATGTTATA
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:35709 original size:21 final size:21
Alignment explanation
Indices: 35683--35742 Score: 99
Period size: 21 Copynumber: 3.0 Consensus size: 21
35673 GTCGATGGAT
35683 TATCAGTGGTCCTTCGGGACA
1 TATCAGTGGTCCTTCGGGACA
35704 TATCAGTGGTCCTTCGGGAC-
1 TATCAGTGGTCCTTCGGGACA
35724 -AT-AGTGGTCCTTCGGGACA
1 TATCAGTGGTCCTTCGGGACA
35743 AATGTTCAGT
Statistics
Matches: 38, Mismatches: 0, Indels: 4
0.90 0.00 0.10
Matches are distributed among these distances:
18 16 0.42
19 2 0.05
21 20 0.53
ACGTcount: A:0.18, C:0.23, G:0.30, T:0.28
Consensus pattern (21 bp):
TATCAGTGGTCCTTCGGGACA
Found at i:44859 original size:78 final size:78
Alignment explanation
Indices: 44725--44872 Score: 199
Period size: 78 Copynumber: 1.9 Consensus size: 78
44715 TAGAATCTGT
* * * *
44725 GTGCATTTGTGGTAAAACTTTTAGTTTTACCTTTTTTTATGATAGTGGATGGTTGAAAACAGATT
1 GTGCATTTATGGTAAAACTTTTAGTTTTACCATTTTTTATAATAGTGGATGATTGAAAACAGATT
44790 GTTAAGAATCCAC
66 GTTAAGAATCCAC
* * * *
44803 GTGCATTTATTGTAGAACTTTTAGTTTTA-CATTTTTTATAATTGTGAGATGATTGAAAATAGAT
1 GTGCATTTATGGTAAAACTTTTAGTTTTACCATTTTTTATAATAGTG-GATGATTGAAAACAGAT
*
44867 TTTTAA
65 TGTTAA
44873 AATTATCTTA
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
77 14 0.23
78 46 0.77
ACGTcount: A:0.30, C:0.07, G:0.18, T:0.45
Consensus pattern (78 bp):
GTGCATTTATGGTAAAACTTTTAGTTTTACCATTTTTTATAATAGTGGATGATTGAAAACAGATT
GTTAAGAATCCAC
Found at i:45327 original size:21 final size:20
Alignment explanation
Indices: 45289--45324 Score: 58
Period size: 19 Copynumber: 1.9 Consensus size: 20
45279 GTTTGACTAA
45289 AATAATTTTTTTTGTATTGC
1 AATAATTTTTTTTGTATTGC
45309 AAT-ATTTTTTTT-TATT
1 AATAATTTTTTTTGTATT
45325 ATTTTGAATA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 4 0.25
19 9 0.56
20 3 0.19
ACGTcount: A:0.25, C:0.03, G:0.06, T:0.67
Consensus pattern (20 bp):
AATAATTTTTTTTGTATTGC
Found at i:47292 original size:20 final size:21
Alignment explanation
Indices: 47267--47318 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
47257 TTTTCCCAAT
*
47267 TCGCAATGCGAA-TAAGTAAA
1 TCGCAATGCGAATTAAGAAAA
* **
47287 TCGCAACGCGAATTGGGAAAA
1 TCGCAATGCGAATTAAGAAAA
47308 TCGCAATGCGA
1 TCGCAATGCGA
47319 TACTGACTAT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 11 0.42
21 15 0.58
ACGTcount: A:0.38, C:0.19, G:0.25, T:0.17
Consensus pattern (21 bp):
TCGCAATGCGAATTAAGAAAA
Found at i:47332 original size:20 final size:20
Alignment explanation
Indices: 47307--47414 Score: 110
Period size: 20 Copynumber: 5.3 Consensus size: 20
47297 AATTGGGAAA
47307 ATCGCAATGCGATACTGACT
1 ATCGCAATGCGATACTGACT
*
47327 ATCGCAATGCGATACTTACT
1 ATCGCAATGCGATACTGACT
* *
47347 ATCGCAATGCGATAAT-ACAAA
1 ATCGCAATGCGATACTGAC--T
* *
47368 ATCGCAACGAGATACTGACT
1 ATCGCAATGCGATACTGACT
* * *
47388 TTCGCAACGCGATTCTGACT
1 ATCGCAATGCGATACTGACT
*
47408 TTCGCAA
1 ATCGCAA
47415 CGTGATTTAC
Statistics
Matches: 75, Mismatches: 10, Indels: 6
0.82 0.11 0.07
Matches are distributed among these distances:
19 2 0.03
20 58 0.77
21 13 0.17
22 2 0.03
ACGTcount: A:0.32, C:0.25, G:0.18, T:0.25
Consensus pattern (20 bp):
ATCGCAATGCGATACTGACT
Found at i:47415 original size:20 final size:20
Alignment explanation
Indices: 47369--47421 Score: 79
Period size: 20 Copynumber: 2.6 Consensus size: 20
47359 TAATACAAAA
*
47369 TCGCAACGAGATACTGACTT
1 TCGCAACGAGATTCTGACTT
*
47389 TCGCAACGCGATTCTGACTT
1 TCGCAACGAGATTCTGACTT
*
47409 TCGCAACGTGATT
1 TCGCAACGAGATT
47422 TACATAGCGC
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.25, C:0.26, G:0.21, T:0.28
Consensus pattern (20 bp):
TCGCAACGAGATTCTGACTT
Found at i:48009 original size:19 final size:19
Alignment explanation
Indices: 47982--48122 Score: 104
Period size: 19 Copynumber: 7.8 Consensus size: 19
47972 GAAAATCACA
*
47982 TTGCAATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
48001 TTGCGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
48020 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
* **
48034 TCGCGATAGTCATTTCGCG
1 TTGCGATTTTCATTTCGCG
*
48053 TTGCGA--TTC---TCTCG
1 TTGCGATTTTCATTTCGCG
**
48067 TTGCGATAGTCATTTCCGCG
1 TTGCGATTTTCATTT-CGCG
* *
48087 TTGCGATTCTCATTATCTCG
1 TTGCGATTTTCATT-TCGCG
48107 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
48123 AACCAAAAGA
Statistics
Matches: 96, Mismatches: 14, Indels: 24
0.72 0.10 0.18
Matches are distributed among these distances:
14 19 0.20
16 4 0.04
17 5 0.05
19 36 0.38
20 31 0.32
21 1 0.01
ACGTcount: A:0.13, C:0.24, G:0.20, T:0.43
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCG
Found at i:48047 original size:33 final size:33
Alignment explanation
Indices: 48010--48097 Score: 158
Period size: 33 Copynumber: 2.6 Consensus size: 33
48000 GTTGCGATTT
48010 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
*
48043 TCATTTCGCGTTGCGATTCTCTCGTTGCGATAG
1 TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
48076 TCATTTCCGCGTTGCGATTCTC
1 TCATTT-CGCGTTGCGATTCTC
48098 ATTATCTCGT
Statistics
Matches: 53, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
33 38 0.72
34 15 0.28
ACGTcount: A:0.11, C:0.27, G:0.23, T:0.39
Consensus pattern (33 bp):
TCATTTCGCGTTGCGATTCTCTCGTCGCGATAG
Found at i:50291 original size:21 final size:21
Alignment explanation
Indices: 50267--50333 Score: 55
Period size: 21 Copynumber: 3.2 Consensus size: 21
50257 TCATTCCTCG
50267 AGAGTCCCCTCCCACCGTTCA
1 AGAGTCCCCTCCCACCGTTCA
* * ** * *
50288 AGAGGCCACTGTCATCGTTGA
1 AGAGTCCCCTCCCACCGTTCA
*
50309 AGAGGT-CCCTCCCACCATTCA
1 AGA-GTCCCCTCCCACCGTTCA
50330 AGAG
1 AGAG
50334 CCCGATTCAC
Statistics
Matches: 32, Mismatches: 13, Indels: 3
0.67 0.27 0.06
Matches are distributed among these distances:
20 1 0.03
21 30 0.94
22 1 0.03
ACGTcount: A:0.24, C:0.36, G:0.21, T:0.19
Consensus pattern (21 bp):
AGAGTCCCCTCCCACCGTTCA
Found at i:50291 original size:42 final size:42
Alignment explanation
Indices: 50215--50333 Score: 107
Period size: 42 Copynumber: 2.8 Consensus size: 42
50205 GACTCGCCTG
* * * * * * *
50215 TCATCCCTCAAGAGTCCACTCCTATCGTTGAAGAGGCCCCTA
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
*
50257 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTG
1 TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
* * *
50299 TCA-TCGTTGAAGAGGT-CCCTCCCACCATTCAAGAG
1 TCATTCCTCG-AGA-GTCCCCTCCCACCGTTCAAGAG
50334 CCCGATTCAC
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
41 4 0.06
42 58 0.91
43 2 0.03
ACGTcount: A:0.23, C:0.36, G:0.18, T:0.23
Consensus pattern (42 bp):
TCATTCCTCGAGAGTCCCCTCCCACCGTTCAAGAGGCCACTA
Found at i:51705 original size:14 final size:14
Alignment explanation
Indices: 51686--51721 Score: 63
Period size: 14 Copynumber: 2.6 Consensus size: 14
51676 ATTGTTTAAT
51686 TGATTTGTAAAAGG
1 TGATTTGTAAAAGG
*
51700 TGATTTGTAAAAGT
1 TGATTTGTAAAAGG
51714 TGATTTGT
1 TGATTTGT
51722 TTAATTGATG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 21 1.00
ACGTcount: A:0.31, C:0.00, G:0.25, T:0.44
Consensus pattern (14 bp):
TGATTTGTAAAAGG
Found at i:51889 original size:19 final size:19
Alignment explanation
Indices: 51828--51880 Score: 97
Period size: 19 Copynumber: 2.8 Consensus size: 19
51818 AAAAAGTACT
*
51828 ATCGCAATGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
51847 ATCGCAACGCGAAATGAAA
1 ATCGCAACGCGAAATGAAA
51866 ATCGCAACGCGAAAT
1 ATCGCAACGCGAAAT
51881 TAAATTCGCG
Statistics
Matches: 33, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
19 33 1.00
ACGTcount: A:0.45, C:0.21, G:0.21, T:0.13
Consensus pattern (19 bp):
ATCGCAACGCGAAATGAAA
Found at i:51907 original size:19 final size:19
Alignment explanation
Indices: 51885--52035 Score: 71
Period size: 19 Copynumber: 8.7 Consensus size: 19
51875 CGAAATTAAA
51885 TTCGCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
51904 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
51919 -CCTCGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
* *
51937 TTCGCATTGCGA-----AA
1 TTCGCGTTGCGATTTTCAT
*
51951 TTCGTGTTGCGATTTTCAT
1 TTCGCGTTGCGATTTTCAT
*
51970 TTCGCATTGCGA--TTC--
1 TTCGCGTTGCGATTTTCAT
* *
51985 -TCTCGTTGCGATTTTTAT
1 TTCGCGTTGCGATTTTCAT
* ** *
52003 TTCGCATTGCGATAGTAAT
1 TTCGCGTTGCGATTTTCAT
52022 TTCCGCGTTGCGAT
1 TT-CGCGTTGCGAT
52036 AGACATTAAG
Statistics
Matches: 94, Mismatches: 22, Indels: 31
0.64 0.15 0.21
Matches are distributed among these distances:
14 28 0.30
16 5 0.05
17 6 0.06
19 45 0.48
20 10 0.11
ACGTcount: A:0.15, C:0.22, G:0.21, T:0.43
Consensus pattern (19 bp):
TTCGCGTTGCGATTTTCAT
Found at i:51931 original size:33 final size:33
Alignment explanation
Indices: 51889--52015 Score: 195
Period size: 33 Copynumber: 3.8 Consensus size: 33
51879 ATTAAATTCG
51889 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
51922 CGTTGCGATTTTCATTTCGCATTGCGAAATT-CGT
1 CGTTGCGATTTTCATTTCGCATTGCG--ATTCCCT
*
51956 -GTTGCGATTTTCATTTCGCATTGCGATTCTCT
1 CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
*
51988 CGTTGCGATTTTTATTTCGCATTGCGAT
1 CGTTGCGATTTTCATTTCGCATTGCGAT
52016 AGTAATTTCC
Statistics
Matches: 86, Mismatches: 4, Indels: 8
0.88 0.04 0.08
Matches are distributed among these distances:
31 3 0.03
32 1 0.01
33 77 0.90
34 2 0.02
35 3 0.03
ACGTcount: A:0.14, C:0.22, G:0.20, T:0.44
Consensus pattern (33 bp):
CGTTGCGATTTTCATTTCGCATTGCGATTCCCT
Found at i:51978 original size:66 final size:66
Alignment explanation
Indices: 51882--52014 Score: 239
Period size: 66 Copynumber: 2.0 Consensus size: 66
51872 ACGCGAAATT
51882 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
51947 G
66 G
* * *
51948 AAATTCGTGTTGCGATTTTCATTTCGCATTGCGATTCTCTCGTTGCGATTTTTATTTCGCATTGC
1 AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
52013 G
66 G
52014 A
1 A
52015 TAGTAATTTC
Statistics
Matches: 64, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
66 64 1.00
ACGTcount: A:0.16, C:0.22, G:0.20, T:0.43
Consensus pattern (66 bp):
AAATTCGCGTTGCGATTTTCATTTCGCATTGCGATTCCCTCGTTGCGATTTTCATTTCGCATTGC
G
Found at i:54327 original size:12 final size:12
Alignment explanation
Indices: 54310--54334 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
54300 TCTCCGGGGA
54310 CTTTTTCTTCTT
1 CTTTTTCTTCTT
54322 CTTTTTCTTCTT
1 CTTTTTCTTCTT
54334 C
1 C
54335 AGGATTATAT
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:0.00, C:0.28, G:0.00, T:0.72
Consensus pattern (12 bp):
CTTTTTCTTCTT
Found at i:54543 original size:24 final size:24
Alignment explanation
Indices: 54509--54562 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
54499 CTGAAACATC
*
54509 ATCAAAATCCGAGTATTGACCAAT
1 ATCAAAATCCGAGTATTGACCAAG
* *
54533 ATCAAAGTCCGGGTATTGACCAAG
1 ATCAAAATCCGAGTATTGACCAAG
54557 ATCAAA
1 ATCAAA
54563 TTTCGAATAC
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.41, C:0.20, G:0.17, T:0.22
Consensus pattern (24 bp):
ATCAAAATCCGAGTATTGACCAAG
Found at i:55418 original size:20 final size:20
Alignment explanation
Indices: 55304--55417 Score: 122
Period size: 20 Copynumber: 5.7 Consensus size: 20
55294 GATTCTGTAT
*
55304 TATCTCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
55324 AATCGCGTTGCGAAAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
55344 TATCGCGTTGCGAAAGTTAG
1 TATCGCGTTGCGAAAGTCAG
** *
55364 TATCGCGTTGCGATTTTGT-AT
1 TATCGCGTTGCGA--AAGTCAG
* *
55385 TATTGCGTTGCGATAGTCAG
1 TATCGCGTTGCGAAAGTCAG
*
55405 TATCGCATTGCGA
1 TATCGCGTTGCGA
55418 TTTTACCAAT
Statistics
Matches: 79, Mismatches: 12, Indels: 6
0.81 0.12 0.06
Matches are distributed among these distances:
19 3 0.04
20 61 0.77
21 13 0.16
22 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.27, T:0.32
Consensus pattern (20 bp):
TATCGCGTTGCGAAAGTCAG
Found at i:55420 original size:41 final size:41
Alignment explanation
Indices: 55284--55421 Score: 147
Period size: 41 Copynumber: 3.4 Consensus size: 41
55274 AACTTTGAAA
* *
55284 ATCGCATTGCGATTCTGTATTATCT-CGTTGCGAAAGTCAGA
1 ATCGCATTGCGATTTTGTATTAT-TGCGTTGCGAAAGTCAGT
* ** * * *
55325 ATCGCGTTGCGA--AAGTCAGTATCGCGTTGCGAAAGTTAGT
1 ATCGCATTGCGATTTTGT-ATTATTGCGTTGCGAAAGTCAGT
* *
55365 ATCGCGTTGCGATTTTGTATTATTGCGTTGCGATAGTCAGT
1 ATCGCATTGCGATTTTGTATTATTGCGTTGCGAAAGTCAGT
55406 ATCGCATTGCGATTTT
1 ATCGCATTGCGATTTT
55422 ACCAATTCGC
Statistics
Matches: 79, Mismatches: 14, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
39 2 0.03
40 30 0.38
41 45 0.57
42 2 0.03
ACGTcount: A:0.22, C:0.17, G:0.25, T:0.36
Consensus pattern (41 bp):
ATCGCATTGCGATTTTGTATTATTGCGTTGCGAAAGTCAGT
Found at i:55434 original size:41 final size:42
Alignment explanation
Indices: 55346--55439 Score: 113
Period size: 41 Copynumber: 2.3 Consensus size: 42
55336 AAAGTCAGTA
* * * **
55346 TCGCGTTGCGAAAGTTAGTATCGCGTTGCGATTTTGTATTAT
1 TCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTGTACAAT
55388 T-GCGTTGCGATAGTCAGTATCGCATTGCGA-TTT-TACCAAT
1 TCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTGTA-CAAT
55428 TCGCGTTGCGAT
1 TCGCGTTGCGAT
55440 TTACTTATTC
Statistics
Matches: 45, Mismatches: 5, Indels: 5
0.82 0.09 0.09
Matches are distributed among these distances:
39 2 0.04
40 6 0.13
41 36 0.80
42 1 0.02
ACGTcount: A:0.19, C:0.18, G:0.26, T:0.37
Consensus pattern (42 bp):
TCGCGTTGCGATAGTCAGTATCGCATTGCGATTTTGTACAAT
Found at i:55449 original size:20 final size:21
Alignment explanation
Indices: 55407--55458 Score: 70
Period size: 20 Copynumber: 2.5 Consensus size: 21
55397 ATAGTCAGTA
55407 TCGCATTGCGATTTTACCAAT
1 TCGCATTGCGATTTTACCAAT
* **
55428 TCGCGTTGCGA-TTTACTTAT
1 TCGCATTGCGATTTTACCAAT
55448 TCGCATTGCGA
1 TCGCATTGCGA
55459 ATTGGGAAAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
20 17 0.63
21 10 0.37
ACGTcount: A:0.19, C:0.23, G:0.19, T:0.38
Consensus pattern (21 bp):
TCGCATTGCGATTTTACCAAT
Found at i:56152 original size:21 final size:21
Alignment explanation
Indices: 56126--56178 Score: 88
Period size: 21 Copynumber: 2.5 Consensus size: 21
56116 GTTTCCAGAT
56126 TCGCAACGCGAACATCGACTA
1 TCGCAACGCGAACATCGACTA
*
56147 TCGCAACGCGAACTTCGACTA
1 TCGCAACGCGAACATCGACTA
*
56168 TCGCAATGCGA
1 TCGCAACGCGA
56179 TTTTCCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.30, C:0.32, G:0.21, T:0.17
Consensus pattern (21 bp):
TCGCAACGCGAACATCGACTA
Found at i:56192 original size:21 final size:23
Alignment explanation
Indices: 56174--56614 Score: 322
Period size: 21 Copynumber: 20.7 Consensus size: 23
56164 ACTATCGCAA
56174 TGCGA-TT-TTCCAAATTCGCGT
1 TGCGATTTATTCCAAATTCGCGT
*
56195 TGCGATTTATTCCAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGCGT
*
56218 TGCGATTTATTCCAAATT--CTT
1 TGCGATTTATTCCAAATTCGCGT
56239 TGCGATTTATTCCAAATTCGCGT
1 TGCGATTTATTCCAAATTCGCGT
* * * *
56262 TGCGA--TAGTCGAAGTTCGCAT
1 TGCGATTTATTCCAAATTCGCGT
56283 TGCGATTTATTCCAAATT--CGT
1 TGCGATTTATTCCAAATTCGCGT
56304 TGCGATTTATTCCAAATTCGCGT
1 TGCGATTTATTCCAAATTCGCGT
* *
56327 TACGA--TAGT-CAAAGTTCGCGT
1 TGCGATTTATTCCAAA-TTCGCGT
*
56348 TGCGATTTATTCCAAGTT--CGT
1 TGCGATTTATTCCAAATTCGCGT
* * *
56369 TGCGA--TAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGCGT
*
56390 TGCGATTTATTCCAAGTT--CGT
1 TGCGATTTATTCCAAATTCGCGT
* * * *
56411 TGC-A-ATAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGCGT
*
56432 TGCGATTTATTCCAAGTT--CGT
1 TGCGATTTATTCCAAATTCGCGT
* * *
56453 TGCGA--TAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGCGT
*
56474 TGCGATTTATTCCAAGTT--CGT
1 TGCGATTTATTCCAAATTCGCGT
* * *
56495 TGCGA--TAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGCGT
*
56516 TGCGATTTATTCCAAGTT--CGT
1 TGCGATTTATTCCAAATTCGCGT
* * * *
56537 TGCGA--TAGTCGAAGTTCGCAT
1 TGCGATTTATTCCAAATTCGCGT
*
56558 TGCGATTTATTCCAAGTT--CGT
1 TGCGATTTATTCCAAATTCGCGT
* * *
56579 TGCGA--TAGTCGAAGTTCGCGT
1 TGCGATTTATTCCAAATTCGCGT
56600 TGCGATTTATTCCAA
1 TGCGATTTATTCCAA
56615 GTTTGTTGCA
Statistics
Matches: 339, Mismatches: 45, Indels: 70
0.75 0.10 0.15
Matches are distributed among these distances:
19 54 0.16
20 5 0.01
21 166 0.49
22 3 0.01
23 108 0.32
24 3 0.01
ACGTcount: A:0.21, C:0.20, G:0.22, T:0.37
Consensus pattern (23 bp):
TGCGATTTATTCCAAATTCGCGT
Found at i:56388 original size:42 final size:42
Alignment explanation
Indices: 56208--56650 Score: 633
Period size: 42 Copynumber: 10.5 Consensus size: 42
56198 GATTTATTCC
* * * *
56208 AAGTTCGCGTTGCGATTTATTCCAAATTCTTTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGA--TAGTCG
* * * * *
56252 AAATTCGCGTTGCGA--TAGTCGAAGTTCGCATTGCGATTTATTCC
1 AAGTTCGCGTTGCGATTTATTCCAAGTTCG--TTGCGA--TAGTCG
* * * *
56296 AAATT--CGTTGCGATTTATTCCAAATTCGCGTTACGATAGTCA
1 AAGTTCGCGTTGCGATTTATTCCAAGTT--CGTTGCGATAGTCG
56338 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
1 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
*
56380 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCAATAGTCG
1 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
56422 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
1 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
56464 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
1 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
56506 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
1 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
*
56548 AAGTTCGCATTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
1 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
* *
56590 AAGTTCGCGTTGCGATTTATTCCAAGTTTGTTGCAATAGTCG
1 AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
56632 AAGTTCGCGTTGCGATTTA
1 AAGTTCGCGTTGCGATTTA
56651 CTCGTTGCGG
Statistics
Matches: 370, Mismatches: 21, Indels: 18
0.90 0.05 0.04
Matches are distributed among these distances:
42 302 0.82
44 66 0.18
46 2 0.01
ACGTcount: A:0.21, C:0.19, G:0.23, T:0.37
Consensus pattern (42 bp):
AAGTTCGCGTTGCGATTTATTCCAAGTTCGTTGCGATAGTCG
Found at i:57396 original size:21 final size:21
Alignment explanation
Indices: 57370--57440 Score: 74
Period size: 21 Copynumber: 3.4 Consensus size: 21
57360 ATTTTGGACT
57370 ATCGCAACGAATTTGGAATAA
1 ATCGCAACGAATTTGGAATAA
* * *
57391 ATCGCAATGCGAACTTCGACT--
1 ATCGCAA--CGAATTTGGAATAA
*
57412 ATCGCAACGAATTTGTAATAA
1 ATCGCAACGAATTTGGAATAA
57433 ATCGCAAC
1 ATCGCAAC
57441 ACGAACTTGG
Statistics
Matches: 39, Mismatches: 7, Indels: 8
0.72 0.13 0.15
Matches are distributed among these distances:
19 8 0.21
21 22 0.56
23 9 0.23
ACGTcount: A:0.38, C:0.21, G:0.17, T:0.24
Consensus pattern (21 bp):
ATCGCAACGAATTTGGAATAA
Found at i:57457 original size:21 final size:20
Alignment explanation
Indices: 57363--57460 Score: 65
Period size: 21 Copynumber: 4.7 Consensus size: 20
57353 CGTTGCGATT
*
57363 TTGGACTATCGC-AACGAAT
1 TTGGACTATCGCAAACGAAC
* *
57382 TTGGAATAAATCGCAATGCGAAC
1 TTGGACT--ATCGCAA-ACGAAC
* *
57405 TTCGACTATCGC-AACGAAT
1 TTGGACTATCGCAAACGAAC
* *
57424 TTGTAATAAATCGCAACACGAAC
1 TTGGACT--ATCGCAA-ACGAAC
57447 TTGGACTATCGCAA
1 TTGGACTATCGCAA
57461 TAAATTTGTA
Statistics
Matches: 58, Mismatches: 13, Indels: 14
0.68 0.15 0.16
Matches are distributed among these distances:
19 14 0.24
20 1 0.02
21 22 0.38
22 2 0.03
23 19 0.33
ACGTcount: A:0.36, C:0.21, G:0.18, T:0.24
Consensus pattern (20 bp):
TTGGACTATCGCAAACGAAC
Found at i:57502 original size:41 final size:42
Alignment explanation
Indices: 57363--57501 Score: 199
Period size: 42 Copynumber: 3.3 Consensus size: 42
57353 CGTTGCGATT
* *
57363 TTGGACTATCGCAACGAATTTGGAATAAATCGCAATGCGAAC
1 TTGGACTATCGCAACGAATTTGTAATAAATCGCAACGCGAAC
* *
57405 TTCGACTATCGCAACGAATTTGTAATAAATCGCAACACGAAC
1 TTGGACTATCGCAACGAATTTGTAATAAATCGCAACGCGAAC
** * *
57447 TTGGACTATCGCAATAAATTTGTAATAAA-AGTAACGCGAAC
1 TTGGACTATCGCAACGAATTTGTAATAAATCGCAACGCGAAC
57488 TTGGACTATCGCAA
1 TTGGACTATCGCAA
57502 TGCGAATATG
Statistics
Matches: 87, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
41 23 0.26
42 64 0.74
ACGTcount: A:0.37, C:0.19, G:0.18, T:0.25
Consensus pattern (42 bp):
TTGGACTATCGCAACGAATTTGTAATAAATCGCAACGCGAAC
Found at i:58080 original size:25 final size:26
Alignment explanation
Indices: 58051--58099 Score: 73
Period size: 25 Copynumber: 1.9 Consensus size: 26
58041 AAAATCTTAA
* *
58051 TTTAAATATAAAT-TCCAATTTATGC
1 TTTAAACATAAATATCAAATTTATGC
58076 TTTAAACATAAATATCAAATTTAT
1 TTTAAACATAAATATCAAATTTAT
58100 TTTATATTAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 12 0.57
26 9 0.43
ACGTcount: A:0.45, C:0.10, G:0.02, T:0.43
Consensus pattern (26 bp):
TTTAAACATAAATATCAAATTTATGC
Found at i:58432 original size:19 final size:19
Alignment explanation
Indices: 58401--58439 Score: 53
Period size: 19 Copynumber: 2.1 Consensus size: 19
58391 TTAAATCATT
58401 AAATTTATATTTTA-TTTA
1 AAATTTATATTTTAGTTTA
*
58419 AAATATTATTTTTTAGTTTA
1 AAAT-TTATATTTTAGTTTA
58439 A
1 A
58440 TCAAATTAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
18 4 0.22
19 9 0.50
20 5 0.28
ACGTcount: A:0.38, C:0.00, G:0.03, T:0.59
Consensus pattern (19 bp):
AAATTTATATTTTAGTTTA
Found at i:58753 original size:5 final size:5
Alignment explanation
Indices: 58745--58778 Score: 68
Period size: 5 Copynumber: 6.8 Consensus size: 5
58735 TATCTATAAA
58745 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAAT AAAA
58779 AATAATCTAG
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 29 1.00
ACGTcount: A:0.82, C:0.00, G:0.00, T:0.18
Consensus pattern (5 bp):
AAAAT
Found at i:63793 original size:44 final size:44
Alignment explanation
Indices: 63743--63839 Score: 167
Period size: 44 Copynumber: 2.2 Consensus size: 44
63733 TTATTCTATA
63743 TTTTAGTTAATTTTTTATTAAATAATGTAGTTCAAAATGCGTAG
1 TTTTAGTTAATTTTTTATTAAATAATGTAGTTCAAAATGCGTAG
* * *
63787 TTTTAGTTAATTTTTTATTAGATTATGTAGTTCAAAATGTGTAG
1 TTTTAGTTAATTTTTTATTAAATAATGTAGTTCAAAATGCGTAG
63831 TTTTAGTTA
1 TTTTAGTTA
63840 TACCATTAGC
Statistics
Matches: 50, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
44 50 1.00
ACGTcount: A:0.31, C:0.03, G:0.14, T:0.52
Consensus pattern (44 bp):
TTTTAGTTAATTTTTTATTAAATAATGTAGTTCAAAATGCGTAG
Found at i:64074 original size:7 final size:7
Alignment explanation
Indices: 64062--64109 Score: 71
Period size: 7 Copynumber: 6.9 Consensus size: 7
64052 CACTAAATTT
64062 AATTTAA
1 AATTTAA
64069 AATTTAA
1 AATTTAA
64076 AATTTAA
1 AATTTAA
64083 AATTTAA
1 AATTTAA
*
64090 AATATAA
1 AATTTAA
64097 AATCTT-A
1 AAT-TTAA
64104 AATTTA
1 AATTTA
64110 TTTTTATTTT
Statistics
Matches: 37, Mismatches: 2, Indels: 4
0.86 0.05 0.09
Matches are distributed among these distances:
6 2 0.05
7 34 0.92
8 1 0.03
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.42
Consensus pattern (7 bp):
AATTTAA
Found at i:67795 original size:21 final size:21
Alignment explanation
Indices: 67769--67856 Score: 167
Period size: 21 Copynumber: 4.2 Consensus size: 21
67759 ATAATGTCCA
67769 TAAGGACCACATATCATTCCT
1 TAAGGACCACATATCATTCCT
*
67790 TAAGGACTACATATCATTCCT
1 TAAGGACCACATATCATTCCT
67811 TAAGGACCACATATCATTCCT
1 TAAGGACCACATATCATTCCT
67832 TAAGGACCACATATCATTCCT
1 TAAGGACCACATATCATTCCT
67853 TAAG
1 TAAG
67857 AATCATATAC
Statistics
Matches: 65, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
21 65 1.00
ACGTcount: A:0.34, C:0.26, G:0.10, T:0.30
Consensus pattern (21 bp):
TAAGGACCACATATCATTCCT
Found at i:76146 original size:32 final size:30
Alignment explanation
Indices: 76065--76153 Score: 99
Period size: 30 Copynumber: 2.9 Consensus size: 30
76055 GAAAAAGAAT
*
76065 ATGTGATATGTGAAAGTGAATCATATGAAA
1 ATGTGATATGTGAAAGTGAACCATATGAAA
* *
76095 ATGTGCTACGT-ACAAGTGAACCATATGATTAA
1 ATGTGATATGTGA-AAGTGAACCATATGA--AA
*
76127 ATTTGATATGTGAAAGTGAACCTATAT
1 ATGTGATATGTGAAAGTGAACC-ATAT
76154 ATATATATAT
Statistics
Matches: 48, Mismatches: 6, Indels: 7
0.79 0.10 0.11
Matches are distributed among these distances:
29 1 0.02
30 23 0.48
32 19 0.40
33 5 0.10
ACGTcount: A:0.39, C:0.09, G:0.20, T:0.31
Consensus pattern (30 bp):
ATGTGATATGTGAAAGTGAACCATATGAAA
Found at i:76393 original size:31 final size:31
Alignment explanation
Indices: 76347--76419 Score: 110
Period size: 31 Copynumber: 2.4 Consensus size: 31
76337 TTCTACAGAA
* * *
76347 CATATAGACAGAATTACCTATTTCTTTCGGG
1 CATATGGACAAAATTACCTATGTCTTTCGGG
*
76378 CATATGGACAAAATTACCTATGTCTTTTGGG
1 CATATGGACAAAATTACCTATGTCTTTCGGG
76409 CATATGGACAA
1 CATATGGACAA
76420 TACCTATGTT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 38 1.00
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Consensus pattern (31 bp):
CATATGGACAAAATTACCTATGTCTTTCGGG
Found at i:77149 original size:18 final size:19
Alignment explanation
Indices: 77124--77171 Score: 73
Period size: 18 Copynumber: 2.6 Consensus size: 19
77114 TATTGTTTAT
77124 TACTGTTCATA-CGTATAG
1 TACTGTTCATAGCGTATAG
*
77142 TGCTGTTCA-AGCGTATAG
1 TACTGTTCATAGCGTATAG
77160 TACTGTTCATAG
1 TACTGTTCATAG
77172 ATACATTTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
17 1 0.04
18 23 0.88
19 2 0.08
ACGTcount: A:0.25, C:0.17, G:0.21, T:0.38
Consensus pattern (19 bp):
TACTGTTCATAGCGTATAG
Found at i:78001 original size:12 final size:12
Alignment explanation
Indices: 77981--78022 Score: 52
Period size: 12 Copynumber: 3.7 Consensus size: 12
77971 ACTGTAGCAG
77981 GGTACTGTTCAC
1 GGTACTGTTCAC
*
77993 GGTATTGTTCA-
1 GGTACTGTTCAC
*
78004 -ATACTGTTCAC
1 GGTACTGTTCAC
78015 GGTACTGT
1 GGTACTGT
78023 CACTGTTCAT
Statistics
Matches: 24, Mismatches: 4, Indels: 4
0.75 0.12 0.12
Matches are distributed among these distances:
10 8 0.33
12 16 0.67
ACGTcount: A:0.19, C:0.19, G:0.24, T:0.38
Consensus pattern (12 bp):
GGTACTGTTCAC
Found at i:78541 original size:21 final size:20
Alignment explanation
Indices: 78515--78572 Score: 80
Period size: 21 Copynumber: 2.9 Consensus size: 20
78505 ATCCTCTAGC
*
78515 AAAAGGATTGATCCCTTTGA
1 AAAAGGATCGATCCCTTTGA
* *
78535 CCAAAGGATCGATCCCCTTGA
1 -AAAAGGATCGATCCCTTTGA
78556 AAAAGGATCGATCCCTT
1 AAAAGGATCGATCCCTT
78573 GGATAACATT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
20 15 0.47
21 17 0.53
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.24
Consensus pattern (20 bp):
AAAAGGATCGATCCCTTTGA
Found at i:78560 original size:41 final size:41
Alignment explanation
Indices: 78495--78572 Score: 111
Period size: 41 Copynumber: 1.9 Consensus size: 41
78485 GATTTTTGCT
* * *
78495 CAAACGATCGATCCTCTAGCAAAAGGATTGATCCCTTTGAC
1 CAAACGATCGATCCCCTAGAAAAAGGATCGATCCCTTTGAC
* *
78536 CAAAGGATCGATCCCCTTGAAAAAGGATCGATCCCTT
1 CAAACGATCGATCCCCTAGAAAAAGGATCGATCCCTT
78573 GGATAACATT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
41 32 1.00
ACGTcount: A:0.32, C:0.27, G:0.18, T:0.23
Consensus pattern (41 bp):
CAAACGATCGATCCCCTAGAAAAAGGATCGATCCCTTTGAC
Found at i:78562 original size:20 final size:20
Alignment explanation
Indices: 78500--78570 Score: 79
Period size: 20 Copynumber: 3.5 Consensus size: 20
78490 TTGCTCAAAC
* * *
78500 GATCGATCCTCTAGCAAAAG
1 GATCGATCCCCTTGAAAAAG
* * *
78520 GATTGATCCCTTTGACCAAAG
1 GATCGATCCCCTTGA-AAAAG
78541 GATCGATCCCCTTGAAAAAG
1 GATCGATCCCCTTGAAAAAG
78561 GATCGATCCC
1 GATCGATCCC
78571 TTGGATAACA
Statistics
Matches: 41, Mismatches: 9, Indels: 2
0.79 0.17 0.04
Matches are distributed among these distances:
20 24 0.59
21 17 0.41
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.23
Consensus pattern (20 bp):
GATCGATCCCCTTGAAAAAG
Done.