Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01008031.1 Hibiscus syriacus cultivar Beakdansim tig00110511_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: 1788856
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
File 2 of 9
Found at i:214992 original size:2 final size:2
Alignment explanation
Indices: 214944--214978 Score: 70
Period size: 2 Copynumber: 17.5 Consensus size: 2
214934 CATACAAAAC
214944 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
214979 AGATTGTATA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 33 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:217531 original size:54 final size:54
Alignment explanation
Indices: 217518--217949 Score: 648
Period size: 54 Copynumber: 8.0 Consensus size: 54
217508 ACATAGTGTT
** *
217518 GAAACGGTTATTCATCAACATATGATGAATTTTGTGAATTGCACACTTAGTGTC
1 GAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC
* *
217572 GAAACAGTTATTCATCAACATATGATGAATTCCGTGAGTTGCACACTTAGTGCC
1 GAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC
* * * * **
217626 AAAACGATTATTCATCAACATATGATGAATTCCATGAATTGCACACTTAATGTA
1 GAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC
** * *
217680 GAAACAATTATTCATCAACATATGATGAATTCCGTGAATTGAACACTTAGTGCT
1 GAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC
***
217734 GAAACGGTTATTCATCAACATATGATGAATTTTTTGAATTGCACACTTAGTGCC
1 GAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC
* * *
217788 GAAATGGTTATTCCTCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCT
1 GAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC
*
217842 GAAACGGTTATTCATCAACATAAGATGAATTCCGTGAATTGCACACTTAGTGCC
1 GAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC
* *
217896 GAAACGGGTATTCATCAACATATGATGAATTTCGTGAATTGCACACTTAGTGCC
1 GAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC
217950 TATTTGGTAA
Statistics
Matches: 338, Mismatches: 40, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 338 1.00
ACGTcount: A:0.33, C:0.18, G:0.17, T:0.32
Consensus pattern (54 bp):
GAAACGGTTATTCATCAACATATGATGAATTCCGTGAATTGCACACTTAGTGCC
Found at i:224688 original size:21 final size:21
Alignment explanation
Indices: 224664--224727 Score: 119
Period size: 21 Copynumber: 3.0 Consensus size: 21
224654 ATGACATTCG
*
224664 TAACAACAAACTTTAAATCCA
1 TAACAACTAACTTTAAATCCA
224685 TAACAACTAACTTTAAATCCA
1 TAACAACTAACTTTAAATCCA
224706 TAACAACTAACTTTAAATCCA
1 TAACAACTAACTTTAAATCCA
224727 T
1 T
224728 TATAATAAAT
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.48, C:0.23, G:0.00, T:0.28
Consensus pattern (21 bp):
TAACAACTAACTTTAAATCCA
Found at i:228566 original size:12 final size:11
Alignment explanation
Indices: 228546--228575 Score: 51
Period size: 12 Copynumber: 2.6 Consensus size: 11
228536 TCAATATATT
228546 AAAAATTTCCA
1 AAAAATTTCCA
228557 AAATAATTTCCA
1 AAA-AATTTCCA
228569 AAAAATT
1 AAAAATT
228576 ATAGATATTG
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
11 7 0.39
12 11 0.61
ACGTcount: A:0.57, C:0.13, G:0.00, T:0.30
Consensus pattern (11 bp):
AAAAATTTCCA
Found at i:231151 original size:33 final size:33
Alignment explanation
Indices: 231109--231173 Score: 112
Period size: 33 Copynumber: 2.0 Consensus size: 33
231099 GGTTATGAAT
*
231109 AGAAAATTGCTTTTCGAGACTTTGGCTGAGAAC
1 AGAAAATTGCTTGTCGAGACTTTGGCTGAGAAC
*
231142 AGAAAATTGCTTGTCGAGACTTTGGTTGAGAA
1 AGAAAATTGCTTGTCGAGACTTTGGCTGAGAA
231174 TAGTTCTCGA
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.31, C:0.12, G:0.26, T:0.31
Consensus pattern (33 bp):
AGAAAATTGCTTGTCGAGACTTTGGCTGAGAAC
Found at i:233571 original size:23 final size:22
Alignment explanation
Indices: 233523--233569 Score: 85
Period size: 22 Copynumber: 2.1 Consensus size: 22
233513 GTTTTACTGA
233523 TTTCGAATAGAAAAATAATAGC
1 TTTCGAATAGAAAAATAATAGC
*
233545 TTTCGAATAGGAAAATAATAGC
1 TTTCGAATAGAAAAATAATAGC
233567 TTT
1 TTT
233570 TCAAAACGTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.45, C:0.09, G:0.15, T:0.32
Consensus pattern (22 bp):
TTTCGAATAGAAAAATAATAGC
Found at i:236511 original size:23 final size:21
Alignment explanation
Indices: 236462--236501 Score: 80
Period size: 21 Copynumber: 1.9 Consensus size: 21
236452 GAAGCGAGGG
236462 AGCAGAGAGAGAAGCAGCAGA
1 AGCAGAGAGAGAAGCAGCAGA
236483 AGCAGAGAGAGAAGCAGCA
1 AGCAGAGAGAGAAGCAGCA
236502 TATCAGCAGA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.47, C:0.15, G:0.38, T:0.00
Consensus pattern (21 bp):
AGCAGAGAGAGAAGCAGCAGA
Found at i:242696 original size:45 final size:45
Alignment explanation
Indices: 242635--242750 Score: 117
Period size: 45 Copynumber: 2.6 Consensus size: 45
242625 TAATGCACCG
* * * * *
242635 TATGCATCTCAATTATGGCATCCTTTTATTA-TAATAATACACCCC
1 TATGCATTTCATTTATGGCATCCTTTCATGACT-ATAATACACCAC
* * * * * *
242680 TATGCATTTCATTTATGGAATCCTTTCATGACTTTTATACGCTAT
1 TATGCATTTCATTTATGGCATCCTTTCATGACTATAATACACCAC
242725 TATGCATTTCATTTATGGCATCCTTT
1 TATGCATTTCATTTATGGCATCCTTT
242751 AATGCCCCTT
Statistics
Matches: 58, Mismatches: 12, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
45 57 0.98
46 1 0.02
ACGTcount: A:0.26, C:0.21, G:0.09, T:0.44
Consensus pattern (45 bp):
TATGCATTTCATTTATGGCATCCTTTCATGACTATAATACACCAC
Found at i:242794 original size:46 final size:46
Alignment explanation
Indices: 242684--242916 Score: 267
Period size: 46 Copynumber: 5.1 Consensus size: 46
242674 CACCCCTATG
* * *
242684 CATTTCATTTATGGAATCCTTTCATG--ACTTTTATACGCTATTATG
1 CATTTCATTTATGGAATCCTTTCATGCCCCTTTT-TACACTATTATA
* * *
242729 CATTTCATTTATGGCATCCTTTAATGCCCCTTTTTACACTAATATA
1 CATTTCATTTATGGAATCCTTTCATGCCCCTTTTTACACTATTATA
* *
242775 CATTTCATTTCTGGAATCCTTTCATGCCCCTTTTTGCACTATTATA
1 CATTTCATTTATGGAATCCTTTCATGCCCCTTTTTACACTATTATA
* * * *
242821 GATTTCATTTATGGCATCCTCTCATGTCCCTTTTTACACTATTATA
1 CATTTCATTTATGGAATCCTTTCATGCCCCTTTTTACACTATTATA
* ** *
242867 CATTTCATTTATGGCATATTTTCATG-CCCTTTTATACGAC-ATTATG
1 CATTTCATTTATGGAATCCTTTCATGCCCCTTTT-TAC-ACTATTATA
242913 CATT
1 CATT
242917 GTTATACATC
Statistics
Matches: 162, Mismatches: 22, Indels: 7
0.85 0.12 0.04
Matches are distributed among these distances:
45 31 0.19
46 124 0.77
47 7 0.04
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.45
Consensus pattern (46 bp):
CATTTCATTTATGGAATCCTTTCATGCCCCTTTTTACACTATTATA
Found at i:242852 original size:92 final size:92
Alignment explanation
Indices: 242684--242916 Score: 312
Period size: 92 Copynumber: 2.5 Consensus size: 92
242674 CACCCCTATG
* *
242684 CATTTCATTTATGGAATCCTTTCATG-ACTTTTATACGCTATTATGCATTTCATTTATGGCATCC
1 CATTTCATTTATGGAATCCTTTCATGCCCTTTTATACACTATTATGCATTTCATTTATGGCATCC
*
242748 TTTAATGCCCCTTTTTACACTAATATA
66 TCTAATGCCCCTTTTTACACTAATATA
* *
242775 CATTTCATTTCTGGAATCCTTTCATGCCCCTTTT-TGCACTATTATAG-ATTTCATTTATGGCAT
1 CATTTCATTTATGGAATCCTTTCATG-CCCTTTTATACACTATTAT-GCATTTCATTTATGGCAT
* * *
242838 CCTCTCATGTCCCTTTTTACACTATTATA
64 CCTCTAATGCCCCTTTTTACACTAATATA
* **
242867 CATTTCATTTATGGCATATTTTCATGCCCTTTTATACGAC-ATTATGCATT
1 CATTTCATTTATGGAATCCTTTCATGCCCTTTTATAC-ACTATTATGCATT
242917 GTTATACATC
Statistics
Matches: 123, Mismatches: 13, Indels: 11
0.84 0.09 0.07
Matches are distributed among these distances:
91 33 0.27
92 82 0.67
93 8 0.07
ACGTcount: A:0.23, C:0.22, G:0.09, T:0.45
Consensus pattern (92 bp):
CATTTCATTTATGGAATCCTTTCATGCCCTTTTATACACTATTATGCATTTCATTTATGGCATCC
TCTAATGCCCCTTTTTACACTAATATA
Found at i:243161 original size:68 final size:68
Alignment explanation
Indices: 242982--243345 Score: 550
Period size: 68 Copynumber: 5.3 Consensus size: 68
242972 ATTGCACCAT
* * * *
242982 TTTTTGTCAAATCCACAGCTAAGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAC
1 TTTTTGTCAATTGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAC
*
243047 ACCTT
66 A-C-A
* * *
243052 TTTTTTTCAATTGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTTATCTAACTGGCATAACTGAC
1 TTTTTGTCAATTGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAC
243117 ACA
66 ACA
* *
243120 TTTTTGTCAATTGCACAATTAGGACTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAC
1 TTTTTGTCAATTGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAC
243185 ACA
66 ACA
*
243188 TTTCTGTCAATTGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAC
1 TTTTTGTCAATTGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAC
243253 AC-
66 ACA
*
243255 TTTTATGTCAATTGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTAGCATAATTGA
1 TTTT-TGTCAATTGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGA
*
243320 CACC
65 CACA
* * *
243324 TTTCTATCAATTGCATAGTTAG
1 TTTTTGTCAATTGCACAGTTAG
243346 ACTATTAATC
Statistics
Matches: 271, Mismatches: 21, Indels: 6
0.91 0.07 0.02
Matches are distributed among these distances:
67 3 0.01
68 205 0.76
69 4 0.01
70 59 0.22
ACGTcount: A:0.29, C:0.24, G:0.15, T:0.33
Consensus pattern (68 bp):
TTTTTGTCAATTGCACAGTTAGGCCTCAAAGGCACTTAGCCTTTCATCTAACTGGCATAATTGAC
ACA
Found at i:243610 original size:55 final size:55
Alignment explanation
Indices: 243549--243886 Score: 491
Period size: 55 Copynumber: 6.1 Consensus size: 55
243539 TGATAATTGA
* * * *
243549 ACATATA-TGTCCCATATGCAAATTCATACTCTTAGTAT-AGATTTCTTAAGTTTAC
1 ACATATAGTG-CCCATACGGAAATTCATCCACTTAGTATGA-ATTTCTTAAGTTTAC
*
243604 ATATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
1 ACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
* *
243659 ACATATAGTGCCCAAACGGAAATTCATCCACTTAGTATGAATTTCTTAATTTTAC
1 ACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
* *
243714 ACATATAGTGCCCATAAGGAAATTCATCCACTTAGCATGAATTTCGTTAAGTTTAC
1 ACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTC-TTAAGTTTAC
* * * *
243770 ACATATATTACCCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAA
1 ACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
**
243825 ACATATAGTGCCCATACATAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
1 ACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
*
243880 CCATATA
1 ACATATA
243887 CTTAGTATGA
Statistics
Matches: 257, Mismatches: 23, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
55 205 0.80
56 52 0.20
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (55 bp):
ACATATAGTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
Found at i:243817 original size:111 final size:110
Alignment explanation
Indices: 243568--243886 Score: 480
Period size: 111 Copynumber: 2.9 Consensus size: 110
243558 TCCCATATGC
* * * *
243568 AAATTCATACTCTTAGTAT-AGATTTCTTAAGTTTACATATATAGTGCCCATACGGAAATTCATC
1 AAATTCATCCACTTAGTATGA-ATTTCTTAAGTTTACACATATAGTGCCCATAAGGAAATTCATC
* *
243632 CACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCAAACGG
65 CACTTAGTATGAATTTCTTAAGTTTACACATATAGTACCCAAACAG
*
243678 AAATTCATCCACTTAGTATGAATTTCTTAATTTTACACATATAGTGCCCATAAGGAAATTCATCC
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATAAGGAAATTCATCC
* * *
243743 ACTTAGCATGAATTTCGTTAAGTTTACACATATATTACCCATACAG
66 ACTTAGTATGAATTTC-TTAAGTTTACACATATAGTACCCAAACAG
* *
243789 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCATACA-TAAATTCATC
1 AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATA-AGGAAATTCATC
*
243853 CACTTAGTATGAATTTCTTAAGTTTACCCATATA
65 CACTTAGTATGAATTTCTTAAGTTTACACATATA
243887 CTTAGTATGA
Statistics
Matches: 191, Mismatches: 15, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
110 89 0.47
111 101 0.53
112 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (110 bp):
AAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATAAGGAAATTCATCC
ACTTAGTATGAATTTCTTAAGTTTACACATATAGTACCCAAACAG
Found at i:243822 original size:166 final size:165
Alignment explanation
Indices: 243549--243886 Score: 500
Period size: 166 Copynumber: 2.0 Consensus size: 165
243539 TGATAATTGA
* * * * *
243549 ACATATATGTCCCATATGCAAATTCATACTCTTAGTATAGATTTCTTAAGTTTACATATATAGTG
1 ACATATATGTCCCATAAGCAAATTCATACACTTAGCATAGATTTCTTAAGTTTACACATATAGTA
* * *
243614 CCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCAAACGGA
66 CCCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCAAACAGA
*
243679 AATTCATCCACTTAGTATGAATTTCTTAATTTTAC
131 AATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
* *
243714 ACATATA-GTGCCCATAAGGAAATTCATCCACTTAGCAT-GAATTTCGTTAAGTTTACACATATA
1 ACATATATGT-CCCATAAGCAAATTCATACACTTAGCATAG-ATTTC-TTAAGTTTACACATATA
* *
243777 TTACCCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCATAC
63 GTACCCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCAAAC
*
243842 ATAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
128 AGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
*
243880 CCATATA
1 ACATATA
243887 CTTAGTATGA
Statistics
Matches: 155, Mismatches: 15, Indels: 5
0.89 0.09 0.03
Matches are distributed among these distances:
164 3 0.02
165 35 0.23
166 117 0.75
ACGTcount: A:0.35, C:0.19, G:0.10, T:0.36
Consensus pattern (165 bp):
ACATATATGTCCCATAAGCAAATTCATACACTTAGCATAGATTTCTTAAGTTTACACATATAGTA
CCCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCAAACAGA
AATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
Found at i:243895 original size:32 final size:32
Alignment explanation
Indices: 243854--243918 Score: 112
Period size: 32 Copynumber: 2.0 Consensus size: 32
243844 AAATTCATCC
243854 ACTTAGTATGAATTTCTTAAGTTTACCCATAT
1 ACTTAGTATGAATTTCTTAAGTTTACCCATAT
* *
243886 ACTTAGTATGAATTTCTTAAGTTTGCGCATAT
1 ACTTAGTATGAATTTCTTAAGTTTACCCATAT
243918 A
1 A
243919 GTGCCCATAC
Statistics
Matches: 31, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 31 1.00
ACGTcount: A:0.31, C:0.14, G:0.12, T:0.43
Consensus pattern (32 bp):
ACTTAGTATGAATTTCTTAAGTTTACCCATAT
Found at i:243945 original size:87 final size:87
Alignment explanation
Indices: 243799--243971 Score: 283
Period size: 87 Copynumber: 2.0 Consensus size: 87
243789 AAATTCATCC
*
243799 ACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCATACATAAATTCATCCACTTAGTATG
1 ACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCATACAGAAATTCATCCACTTAGTATG
* *
243864 AATTTCTTAAGTTTACCCATAT
66 AATTTCTTAAGATTACACATAT
*** *
243886 ACTTAGTATGAATTTCTTAAGTTTGCGCATATAGTGCCCATACGGAAATTCATCCACTTAGTATG
1 ACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCATACAGAAATTCATCCACTTAGTATG
243951 AATTTCTTAAGATTACACATA
66 AATTTCTTAAGATTACACATA
243972 CAGTGCCCAT
Statistics
Matches: 79, Mismatches: 7, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
87 79 1.00
ACGTcount: A:0.34, C:0.17, G:0.12, T:0.38
Consensus pattern (87 bp):
ACTTAGTATGAATTTCTTAAGTTTAAACATATAGTGCCCATACAGAAATTCATCCACTTAGTATG
AATTTCTTAAGATTACACATAT
Found at i:243977 original size:55 final size:55
Alignment explanation
Indices: 243886--244129 Score: 398
Period size: 55 Copynumber: 4.4 Consensus size: 55
243876 TTACCCATAT
* *
243886 ACTTAGTATGAATTTCTTAAGTTTGCGCATATAGTGCCCATACGGAAATTCATCC
1 ACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGGAAATTCATCC
* * * *
243941 ACTTAGTATGAATTTCTTAAGATTACACATACAGTGCCCATACGAAAATTCATCA
1 ACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGGAAATTCATCC
*
243996 ACTTAGTATGAATTTCTTAAGTTTACACATATACTGCCCATACGGAAATTCATCC
1 ACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGGAAATTCATCC
* * *
244051 ACTTAGTATGAATTTCTTAAGTTTACAAATATAATGCTCATACGGAAATTCATCC
1 ACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGGAAATTCATCC
244106 ACTTAGTATGAATTTCTTAAGTTT
1 ACTTAGTATGAATTTCTTAAGTTT
244130 TTACACACTT
Statistics
Matches: 175, Mismatches: 14, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
55 175 1.00
ACGTcount: A:0.34, C:0.18, G:0.12, T:0.36
Consensus pattern (55 bp):
ACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATACGGAAATTCATCC
Found at i:244016 original size:142 final size:143
Alignment explanation
Indices: 243743--244030 Score: 454
Period size: 142 Copynumber: 2.0 Consensus size: 143
243733 AAATTCATCC
*
243743 ACTTAGCATGAATTTCGTTAAGTTTACACATATATTACCCATACAGAAATTCATCCACTTAGTAT
1 ACTTAGCATGAATTTCGTTAAGTTTACACATATAGTACCCATACAGAAATTCATCCACTTAGTAT
* * *
243808 GAATTTCTTAAGTTTAAACATATAGTGCCCATACATAAATTCATCCACTTAGTATGAATTTCTTA
66 GAATTTCTTAAGATTAAACATACAGTGCCCATACATAAATTCATCAACTTAGTATGAATTTCTTA
*
243873 AGTTTACCCATAT
131 AGTTTACACATAT
* * * * *
243886 ACTTAGTATGAATTTC-TTAAGTTTGCGCATATAGTGCCCATACGGAAATTCATCCACTTAGTAT
1 ACTTAGCATGAATTTCGTTAAGTTTACACATATAGTACCCATACAGAAATTCATCCACTTAGTAT
*
243950 GAATTTCTTAAGATTACACATACAGTGCCCATACGA-AAATTCATCAACTTAGTATGAATTTCTT
66 GAATTTCTTAAGATTAAACATACAGTGCCCATAC-ATAAATTCATCAACTTAGTATGAATTTCTT
244014 AAGTTTACACATAT
130 AAGTTTACACATAT
244028 ACT
1 ACT
244031 GCCCATACGG
Statistics
Matches: 133, Mismatches: 11, Indels: 3
0.90 0.07 0.02
Matches are distributed among these distances:
142 117 0.88
143 16 0.12
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (143 bp):
ACTTAGCATGAATTTCGTTAAGTTTACACATATAGTACCCATACAGAAATTCATCCACTTAGTAT
GAATTTCTTAAGATTAAACATACAGTGCCCATACATAAATTCATCAACTTAGTATGAATTTCTTA
AGTTTACACATAT
Found at i:244036 original size:197 final size:198
Alignment explanation
Indices: 243688--244076 Score: 629
Period size: 197 Copynumber: 2.0 Consensus size: 198
243678 AAATTCATCC
*
243688 ACTTAGTATGAATTTCTTAATTTTACACATATAGTGCCCATAAGGAAATTCATCCACTTAGCATG
1 ACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATAAGGAAATTCATCCACTTAGCATG
* * * *
243753 AATTTCGTTAAGTTTACACATATATTACCCATACAGAAATTCATCCACTTAGTATGAATTTCTTA
66 AATTTCGTTAAGATTACACATACAGTACCCATACAGAAATTCATCAACTTAGTATGAATTTCTTA
* *
243818 AGTTTAAACATATAGTGCCCATACATAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACCCA
131 AGTTTAAACATATACTGCCCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACCCA
243883 TAT
196 TAT
* * * *
243886 ACTTAGTATGAATTTCTTAAGTTTGCGCATATAGTGCCCATACGGAAATTCATCCACTTAGTATG
1 ACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATAAGGAAATTCATCCACTTAGCATG
*
243951 AATTTC-TTAAGATTACACATACAGTGCCCATAC-GAAAATTCATCAACTTAGTATGAATTTCTT
66 AATTTCGTTAAGATTACACATACAGTACCCATACAG-AAATTCATCAACTTAGTATGAATTTCTT
* *
244014 AAGTTTACACATATACTGCCCATACGGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
130 AAGTTTAAACATATACTGCCCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTAC
244077 AAATATAATG
Statistics
Matches: 176, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
196 1 0.01
197 109 0.62
198 66 0.38
ACGTcount: A:0.34, C:0.19, G:0.11, T:0.36
Consensus pattern (198 bp):
ACTTAGTATGAATTTCTTAAGTTTACACATATAGTGCCCATAAGGAAATTCATCCACTTAGCATG
AATTTCGTTAAGATTACACATACAGTACCCATACAGAAATTCATCAACTTAGTATGAATTTCTTA
AGTTTAAACATATACTGCCCATACAGAAATTCATCCACTTAGTATGAATTTCTTAAGTTTACCCA
TAT
Found at i:244516 original size:22 final size:20
Alignment explanation
Indices: 244467--244539 Score: 85
Period size: 19 Copynumber: 3.6 Consensus size: 20
244457 TGGCTCCTTA
** *
244467 GTATCGATACCCCTACCATG
1 GTATCGATACTACTACTATG
244487 GTATCGATACTACTATACTATG
1 GTATCGATACTAC--TACTATG
*
244509 GTACCGATACT-CTACTATG
1 GTATCGATACTACTACTATG
244528 GTATCGATACTA
1 GTATCGATACTA
244540 TTTTTGCATT
Statistics
Matches: 45, Mismatches: 5, Indels: 6
0.80 0.09 0.11
Matches are distributed among these distances:
19 17 0.38
20 11 0.24
21 1 0.02
22 16 0.36
ACGTcount: A:0.29, C:0.25, G:0.15, T:0.32
Consensus pattern (20 bp):
GTATCGATACTACTACTATG
Found at i:246986 original size:18 final size:18
Alignment explanation
Indices: 246943--246986 Score: 54
Period size: 17 Copynumber: 2.4 Consensus size: 18
246933 CTTTTAATTT
*
246943 TATTTGAATTTTAAAATAA
1 TATTT-AATTTAAAAATAA
*
246962 -GTTTAATTTAAAAATAA
1 TATTTAATTTAAAAATAA
246979 TATTTAAT
1 TATTTAAT
246987 AATTTATTAA
Statistics
Matches: 21, Mismatches: 3, Indels: 3
0.78 0.11 0.11
Matches are distributed among these distances:
17 12 0.57
18 9 0.43
ACGTcount: A:0.48, C:0.00, G:0.05, T:0.48
Consensus pattern (18 bp):
TATTTAATTTAAAAATAA
Found at i:247148 original size:46 final size:46
Alignment explanation
Indices: 247056--247148 Score: 123
Period size: 46 Copynumber: 2.0 Consensus size: 46
247046 AAAGGGTTAC
* * * * *
247056 TTACTCTTTAAGTCCTTTAAAATTTTTATAAATTCATAAAAGATAA
1 TTACTCTTTAAATCCTTCAAAATTTTTATAAATTAACAAAAAATAA
* *
247102 TTACTTTTTAAATCCTTCAAAATTTTTATATATTAACAAAAAATAA
1 TTACTCTTTAAATCCTTCAAAATTTTTATAAATTAACAAAAAATAA
247148 T
1 T
247149 AGTGAATACC
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
46 40 1.00
ACGTcount: A:0.43, C:0.11, G:0.02, T:0.44
Consensus pattern (46 bp):
TTACTCTTTAAATCCTTCAAAATTTTTATAAATTAACAAAAAATAA
Found at i:253748 original size:18 final size:18
Alignment explanation
Indices: 253725--253764 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
253715 TTTTAATTTA
*
253725 TTTTCTTTAGTTTTTCGT
1 TTTTCTTTAGTTTTTCAT
**
253743 TTTTCTTTTTTTTTTCAT
1 TTTTCTTTAGTTTTTCAT
253761 TTTT
1 TTTT
253765 TATAAATAGT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.05, C:0.10, G:0.05, T:0.80
Consensus pattern (18 bp):
TTTTCTTTAGTTTTTCAT
Found at i:262270 original size:20 final size:20
Alignment explanation
Indices: 262245--262292 Score: 73
Period size: 19 Copynumber: 2.5 Consensus size: 20
262235 AGAAAAAATA
262245 GATTCCCCCCAGGG-GTTACC
1 GATTCCCCCCAGGGAG-TACC
262265 GATT-CCCCCAGGGAGTACC
1 GATTCCCCCCAGGGAGTACC
262284 GATTCCCCC
1 GATTCCCCC
262293 TGTCTAACGG
Statistics
Matches: 26, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
19 17 0.65
20 9 0.35
ACGTcount: A:0.17, C:0.42, G:0.23, T:0.19
Consensus pattern (20 bp):
GATTCCCCCCAGGGAGTACC
Found at i:263556 original size:19 final size:20
Alignment explanation
Indices: 263532--263579 Score: 62
Period size: 19 Copynumber: 2.5 Consensus size: 20
263522 AATGATTTTC
*
263532 TTTTGAAAACAAAAAT-AGA
1 TTTTGAAAACAAAAATGAAA
* *
263551 TTTTGAAAGCCAAAATGAAA
1 TTTTGAAAACAAAAATGAAA
263571 TTTTGAAAA
1 TTTTGAAAA
263580 AGGATTTAGA
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:0.52, C:0.06, G:0.12, T:0.29
Consensus pattern (20 bp):
TTTTGAAAACAAAAATGAAA
Found at i:266350 original size:23 final size:24
Alignment explanation
Indices: 266311--266358 Score: 89
Period size: 23 Copynumber: 2.0 Consensus size: 24
266301 TTCAGCTCTG
266311 GAAAACAACAAAACCTGGGTCATT
1 GAAAACAACAAAACCTGGGTCATT
266335 GAAAACAA-AAAACCTGGGTCATT
1 GAAAACAACAAAACCTGGGTCATT
266358 G
1 G
266359 TTGATCTACC
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
23 16 0.67
24 8 0.33
ACGTcount: A:0.46, C:0.19, G:0.19, T:0.17
Consensus pattern (24 bp):
GAAAACAACAAAACCTGGGTCATT
Found at i:268075 original size:6 final size:6
Alignment explanation
Indices: 268063--268096 Score: 50
Period size: 6 Copynumber: 5.7 Consensus size: 6
268053 CTTAATTGCG
* *
268063 AAAATT TAAATT TAAATT AAAATT AAAATT AAAA
1 AAAATT AAAATT AAAATT AAAATT AAAATT AAAA
268097 ACCCTTTTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.65, C:0.00, G:0.00, T:0.35
Consensus pattern (6 bp):
AAAATT
Found at i:268310 original size:7 final size:7
Alignment explanation
Indices: 268300--268351 Score: 52
Period size: 7 Copynumber: 7.4 Consensus size: 7
268290 ATTAAGTAAT
268300 AAAATAA
1 AAAATAA
268307 AAAATAA
1 AAAATAA
* *
268314 GAAGTAA
1 AAAATAA
*
268321 AAACTAA
1 AAAATAA
268328 AATAA-AA
1 AA-AATAA
*
268335 CAAATAA
1 AAAATAA
268342 AAAATAA
1 AAAATAA
268349 AAA
1 AAA
268352 CATACTAAAA
Statistics
Matches: 36, Mismatches: 7, Indels: 4
0.77 0.15 0.09
Matches are distributed among these distances:
6 2 0.06
7 33 0.92
8 1 0.03
ACGTcount: A:0.79, C:0.04, G:0.04, T:0.13
Consensus pattern (7 bp):
AAAATAA
Found at i:268311 original size:22 final size:21
Alignment explanation
Indices: 268293--268351 Score: 66
Period size: 21 Copynumber: 2.8 Consensus size: 21
268283 GTTAAATATT
268293 AAGTAATAAAATAAAAAATAAG
1 AAGTAA-AAAATAAAAAATAAG
* *
268315 AAGTAAAAACTAAAATAA-AAC
1 AAGTAAAAAATAAAA-AATAAG
*
268336 AAATAAAAAATAAAAA
1 AAGTAAAAAATAAAAA
268352 CATACTAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 1 0.03
21 23 0.72
22 8 0.25
ACGTcount: A:0.76, C:0.03, G:0.05, T:0.15
Consensus pattern (21 bp):
AAGTAAAAAATAAAAAATAAG
Found at i:268394 original size:43 final size:45
Alignment explanation
Indices: 268342--268433 Score: 134
Period size: 43 Copynumber: 2.1 Consensus size: 45
268332 AAACAAATAA
* **
268342 AAAATAAAAACATACTAAAATT-AAAAGG-GGAAAATGAATAACT
1 AAAATAAAAAAATACTAAAATTAAAAAGGAAAAAAATGAATAACT
*
268385 AAAATAAAAAAATGCTAAAATTAAAAAGGAAAAAAATGAATAACT
1 AAAATAAAAAAATACTAAAATTAAAAAGGAAAAAAATGAATAACT
268430 AAAA
1 AAAA
268434 ATTTAAAGGA
Statistics
Matches: 43, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
43 20 0.47
44 6 0.14
45 17 0.40
ACGTcount: A:0.67, C:0.05, G:0.10, T:0.17
Consensus pattern (45 bp):
AAAATAAAAAAATACTAAAATTAAAAAGGAAAAAAATGAATAACT
Found at i:269872 original size:74 final size:74
Alignment explanation
Indices: 269692--269934 Score: 359
Period size: 74 Copynumber: 3.3 Consensus size: 74
269682 TTCAATTTTT
* * *
269692 TTTTCAAAACTATATAATATATATTTTC-AAAATTTATTTTCAAAACTATATAATATATATATAT
1 TTTTCAAAACTATATAATATGTATTTTCAAAAATGT-TTTTAAAAACTATAT-AT-TATATATAT
269756 GTTTTCAAAATTG
63 GTTTTCAAAA-TG
269769 TTTTCAAAACTATATAATATGTATTTTCAAAAATGTTTTTAAAAACTATATATTATATATAT-TT
1 TTTTCAAAACTATATAATATGTATTTTCAAAAATGTTTTTAAAAACTATATATTATATATATGTT
269833 TCTCAAAATG
66 T-TCAAAATG
* *
269843 TTTTCAAAAATATATAATATGTATTTTCAAAAATGTTTTCAAAAACTATATATTATATATATGTT
1 TTTTCAAAACTATATAATATGTATTTTCAAAAATGTTTTTAAAAACTATATATTATATATATGTT
269908 TTCAAAA--
66 TTCAAAATG
*
269915 TTTCCAAAACTATATAATAT
1 TTTTCAAAACTATATAATAT
269935 ATATATTTTT
Statistics
Matches: 156, Mismatches: 7, Indels: 11
0.90 0.04 0.06
Matches are distributed among these distances:
72 18 0.12
74 71 0.46
75 18 0.12
76 2 0.01
77 41 0.26
78 6 0.04
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.45
Consensus pattern (74 bp):
TTTTCAAAACTATATAATATGTATTTTCAAAAATGTTTTTAAAAACTATATATTATATATATGTT
TTCAAAATG
Found at i:269939 original size:36 final size:36
Alignment explanation
Indices: 269691--269944 Score: 222
Period size: 36 Copynumber: 6.9 Consensus size: 36
269681 TTTCAATTTT
269691 TTTTTCAAAACTATAT-A-ATATATA-TTTTCAAAA
1 TTTTTCAAAACTATATAATATATATATTTTTCAAAA
269724 TTTATTTTCAAAACTATATAATATATATATATGTTTTCAAAA
1 --T-TTTTCAAAACTATAT-A-ATATATATAT-TTTTCAAAA
*
269766 TTGTTTTCAAAACTATAT-A-ATATGTA-TTTTCAAAAA
1 -T-TTTTCAAAACTATATAATATATATATTTTTC-AAAA
* *
269802 TGTTTTTAAAAACTATATATTATATATATTTTCTCAAAA
1 --TTTTTCAAAACTATATAATATATATATTTT-TCAAAA
* *
269841 TGTTTTCAAAAATATAT-A-ATATGTA-TTTTCAAAAA
1 T-TTTTCAAAACTATATAATATATATATTTTTC-AAAA
*
269876 TGTTTTCAAAAACTATATATTATATATATGTTTTCAAAA
1 T-TTTTC-AAAACTATATAATATATATAT-TTTTCAAAA
*
269915 -TTTCCAAAACTATATAATATATATATTTTT
1 TTTTTCAAAACTATATAATATATATATTTTT
269945 TTTTCAAAAA
Statistics
Matches: 184, Mismatches: 15, Indels: 40
0.77 0.06 0.17
Matches are distributed among these distances:
34 2 0.01
35 24 0.13
36 68 0.37
37 12 0.07
38 26 0.14
39 12 0.07
40 14 0.08
41 17 0.09
42 9 0.05
ACGTcount: A:0.43, C:0.08, G:0.03, T:0.46
Consensus pattern (36 bp):
TTTTTCAAAACTATATAATATATATATTTTTCAAAA
Found at i:270768 original size:85 final size:85
Alignment explanation
Indices: 270625--270994 Score: 413
Period size: 85 Copynumber: 4.4 Consensus size: 85
270615 ATATGTCATC
* * * * ** **
270625 GAGCTAAATGGAATCGAACTCGACA-GTTTTTGTTGACAGATAGA-TTTTCTCGATTTAAGCTAT
1 GAGCTGAATGTAATCAAACTCGA-AGGTTTTGGTTGACAGATA-ACCCTTCTCGCCTTAAGCTAT
*
270688 GTTGTAAATTTGATATGCCCAT
64 GTTGTAAATTTGATATGCCCTT
* * * ** * * * *
270710 GAGCTGAATGTAATCGAACTCAAAGATTTTTATTGATAGATAACCCTTATTGCCTTAAGTTATGT
1 GAGCTGAATGTAATCAAACTCGAAGGTTTTGGTTGACAGATAACCCTTCTCGCCTTAAGCTATGT
*
270775 TGTAAATTTGATATGTCCTT
66 TGTAAATTTGATATGCCCTT
* * *
270795 GAGCTTAAGGTAATCAAACTCGAAGGTTTTGGTTGACAGATAACCCTTCTCGCCTTGAA-TTATG
1 GAGCTGAATGTAATCAAACTCGAAGGTTTTGGTTGACAGATAACCCTTCTCGCCTT-AAGCTATG
*
270859 TTGTAAATTTGATATGTCCTT
65 TTGTAAATTTGATATGCCCTT
* * *
270880 GAGCTGAATGTAATCAAACTCGAAGGTTTTGGTTGACAGATAGCCCTTCTCGCCTTGAGCTATGC
1 GAGCTGAATGTAATCAAACTCGAAGGTTTTGGTTGACAGATAACCCTTCTCGCCTTAAGCTATGT
*
270945 TATAAATTTGATATGCCCTT
66 TGTAAATTTGATATGCCCTT
* * * *
270965 GAGGTTAATGGAATCGAACTCGAAGGTTTT
1 GAGCTGAATGTAATCAAACTCGAAGGTTTT
270995 TTGCTGGCAG
Statistics
Matches: 244, Mismatches: 37, Indels: 8
0.84 0.13 0.03
Matches are distributed among these distances:
84 3 0.01
85 239 0.98
86 2 0.01
ACGTcount: A:0.28, C:0.15, G:0.20, T:0.36
Consensus pattern (85 bp):
GAGCTGAATGTAATCAAACTCGAAGGTTTTGGTTGACAGATAACCCTTCTCGCCTTAAGCTATGT
TGTAAATTTGATATGCCCTT
Found at i:276279 original size:38 final size:38
Alignment explanation
Indices: 276167--276308 Score: 128
Period size: 38 Copynumber: 3.7 Consensus size: 38
276157 AATAATAAAT
* * * *
276167 AAATACTAAATAAATCAAGGGGAAAAGAAAAGAAAAT-A
1 AAATATTAAATAAATCAA-AGAAAAAAAAAAGAAAATAA
*
276205 AAATA-AAAATAAATCAAAGAAAAAGAAAAAAGAAAATAA
1 AAATATTAAATAAATCAAAG-AAAA-AAAAAAGAAAATAA
** *
276244 AAATATTAAATAAATCAAAGAAAAAAGTAATAAAATAAA
1 AAATATTAAATAAATCAAAGAAAAAAAAAAGAAAAT-AA
* * *
276283 AAATATTAAGT-AATAAAATAAAAAAA
1 AAATATTAAATAAATCAAAGAAAAAAA
276309 TAATAAGAAA
Statistics
Matches: 87, Mismatches: 12, Indels: 10
0.80 0.11 0.09
Matches are distributed among these distances:
36 1 0.01
37 14 0.16
38 37 0.43
39 22 0.25
40 13 0.15
ACGTcount: A:0.73, C:0.03, G:0.08, T:0.16
Consensus pattern (38 bp):
AAATATTAAATAAATCAAAGAAAAAAAAAAGAAAATAA
Found at i:276296 original size:22 final size:23
Alignment explanation
Indices: 276268--276323 Score: 87
Period size: 23 Copynumber: 2.5 Consensus size: 23
276258 TCAAAGAAAA
*
276268 AAGTAATAAAAT-AAAAAATATT
1 AAGTAATAAAATAAAAAAATAAT
276290 AAGTAATAAAATAAAAAAATAAT
1 AAGTAATAAAATAAAAAAATAAT
*
276313 AAGAAATAAAA
1 AAGTAATAAAA
276324 AACTAAAATA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
22 12 0.39
23 19 0.61
ACGTcount: A:0.73, C:0.00, G:0.05, T:0.21
Consensus pattern (23 bp):
AAGTAATAAAATAAAAAAATAAT
Found at i:276313 original size:38 final size:40
Alignment explanation
Indices: 276211--276325 Score: 121
Period size: 40 Copynumber: 2.9 Consensus size: 40
276201 AATAAAATAA
* *
276211 AAATAAATCAAAGAAAAAGAA-AAAAGAAAAT-AAAAATATT
1 AAATAAATAAAAGAAAAA-AATAATA-AAAATAAAAAATATT
* *
276251 AAATAAATCAAAGAAAAAAGTAAT-AAAATAAAAAATATT
1 AAATAAATAAAAGAAAAAAATAATAAAAATAAAAAATATT
* *
276290 AAGT-AATAAAATAAAAAAATAATAAGAAATAAAAAA
1 AAATAAATAAAAGAAAAAAATAATAA-AAATAAAAAA
276326 CTAAAATAAA
Statistics
Matches: 65, Mismatches: 6, Indels: 8
0.82 0.08 0.10
Matches are distributed among these distances:
38 21 0.32
39 14 0.22
40 30 0.46
ACGTcount: A:0.75, C:0.02, G:0.06, T:0.17
Consensus pattern (40 bp):
AAATAAATAAAAGAAAAAAATAATAAAAATAAAAAATATT
Found at i:276333 original size:20 final size:17
Alignment explanation
Indices: 276297--276344 Score: 51
Period size: 20 Copynumber: 2.6 Consensus size: 17
276287 ATTAAGTAAT
*
276297 AAAATAAAAAAATAATA
1 AAAATAAAAAAAAAATA
276314 AGAAATAAAAAACTAAAATA
1 A-AAATAAAAAA--AAAATA
276334 AAACATAAAAA
1 AAA-ATAAAAA
276345 GCATACTAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
17 1 0.04
18 10 0.38
19 2 0.08
20 13 0.50
ACGTcount: A:0.79, C:0.04, G:0.02, T:0.15
Consensus pattern (17 bp):
AAAATAAAAAAAAAATA
Found at i:277626 original size:41 final size:41
Alignment explanation
Indices: 277563--277648 Score: 120
Period size: 41 Copynumber: 2.1 Consensus size: 41
277553 GAATGTTACA
277563 TATAATATATGATTTTAAAAAATGTTTTCAAAATCATATAT
1 TATAATATATGATTTTAAAAAATGTTTTCAAAATCATATAT
** * *
277604 TATACATATAT-ATTTTTGAAAATGTTTTCTAAATTATATAT
1 TATA-ATATATGATTTTAAAAAATGTTTTCAAAATCATATAT
277645 TATA
1 TATA
277649 TATTTTCCAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
41 34 0.85
42 6 0.15
ACGTcount: A:0.43, C:0.05, G:0.05, T:0.48
Consensus pattern (41 bp):
TATAATATATGATTTTAAAAAATGTTTTCAAAATCATATAT
Found at i:277758 original size:36 final size:36
Alignment explanation
Indices: 277672--277973 Score: 217
Period size: 36 Copynumber: 8.1 Consensus size: 36
277662 TTTTTGCAAA
*
277672 ATGTTTTCAAAAATGTGTTTTCCAAAACTATATAATCTAT
1 ATGTTTTC-AAAAT-TGTTTT-CAAAACTATAT-ATATAT
*
277712 AT-TTTT-AAAATTATTTTCAAAACTATATATATAT
1 ATGTTTTCAAAATTGTTTTCAAAACTATATATATAT
* * *
277746 ATGTTTTCAAAATTGTTTTCAAAATTGTTTTCAAAATATAAT
1 ATGTTTTCAAAATTGTTTTCAAAA---CTAT--ATATAT-AT
*
277788 ATGTATTTTTCAAAAATGTTTTCAAAACTATATA-ATAT
1 ATG---TTTTCAAAATTGTTTTCAAAACTATATATATAT
* *
277826 ATATTTTCAAAAATGTTTTCAAAAACTATATATTATATAT
1 ATGTTTTCAAAATTGTTTTC-AAAAC--TATA-TATATAT
*
277866 ATGTTTTCAAAA---TTTCCAAAACTATATATTATAT
1 ATGTTTTCAAAATTGTTTTCAAAACTATATA-TATAT
* * *
277900 AT-TTTTGAAAATCGTTTTCAAAAATATATAT-TAT
1 ATGTTTTCAAAATTGTTTTCAAAACTATATATATAT
* * *
277934 ATTTTTTCGAAAA-TATTTTCAAAAACTCTATTATATAT
1 ATGTTTTC-AAAATTGTTTTC-AAAACTATA-TATATAT
277972 AT
1 AT
277974 ATATATATAT
Statistics
Matches: 216, Mismatches: 21, Indels: 52
0.75 0.07 0.18
Matches are distributed among these distances:
33 10 0.05
34 23 0.11
35 42 0.19
36 55 0.25
37 12 0.06
38 13 0.06
39 10 0.05
40 19 0.09
41 5 0.02
42 7 0.03
45 20 0.09
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (36 bp):
ATGTTTTCAAAATTGTTTTCAAAACTATATATATAT
Found at i:277764 original size:12 final size:12
Alignment explanation
Indices: 277747--277782 Score: 72
Period size: 12 Copynumber: 3.0 Consensus size: 12
277737 TATATATATA
277747 TGTTTTCAAAAT
1 TGTTTTCAAAAT
277759 TGTTTTCAAAAT
1 TGTTTTCAAAAT
277771 TGTTTTCAAAAT
1 TGTTTTCAAAAT
277783 ATAATATGTA
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 24 1.00
ACGTcount: A:0.33, C:0.08, G:0.08, T:0.50
Consensus pattern (12 bp):
TGTTTTCAAAAT
Found at i:277800 original size:45 final size:48
Alignment explanation
Indices: 277713--277814 Score: 147
Period size: 45 Copynumber: 2.2 Consensus size: 48
277703 ATAATCTATA
* *
277713 TTTTTAAAATTATTTTCAAAACTATATATATATATGTTTTCAAAATTG
1 TTTTCAAAATTATTTTCAAAACTATATATATATATGTTTTCAAAAATG
* *
277761 TTTTCAAAATTGTTTTCAAAA-TATA-ATATGTAT-TTTTCAAAAATG
1 TTTTCAAAATTATTTTCAAAACTATATATATATATGTTTTCAAAAATG
277806 TTTTCAAAA
1 TTTTCAAAA
277815 CTATATAATA
Statistics
Matches: 50, Mismatches: 4, Indels: 3
0.88 0.07 0.05
Matches are distributed among these distances:
45 20 0.40
46 7 0.14
47 4 0.08
48 19 0.38
ACGTcount: A:0.40, C:0.07, G:0.05, T:0.48
Consensus pattern (48 bp):
TTTTCAAAATTATTTTCAAAACTATATATATATATGTTTTCAAAAATG
Found at i:277893 original size:108 final size:110
Alignment explanation
Indices: 277781--277977 Score: 283
Period size: 108 Copynumber: 1.8 Consensus size: 110
277771 TGTTTTCAAA
* * *
277781 ATATAATATGTATTTTTCAAAAAT-GTTTTCAAAACTATATAATATATATTTTCAAAAATGTTTT
1 ATATAATATATATTTTT-AAAAATCGTTTTCAAAAATATATAATATATATTTTCAAAAATATTTT
277845 CAAAAACTATA-TAT-TATATATATGTTTTCAAAATTTCCAAAACT
65 CAAAAACTATATTATATATATATATGTTTTCAAAATTTCCAAAACT
* * * * *
277889 ATATATTATATATTTTTGAAAATCGTTTTCAAAAATATATATTATATTTTTTCGAAAATATTTTC
1 ATATAATATATATTTTTAAAAATCGTTTTCAAAAATATATAATATATATTTTCAAAAATATTTTC
*
277954 AAAAACTCTATTATATATATATAT
66 AAAAACTATATTATATATATATAT
277978 ATATATACTA
Statistics
Matches: 77, Mismatches: 9, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
107 5 0.06
108 60 0.78
109 3 0.04
110 9 0.12
ACGTcount: A:0.43, C:0.08, G:0.04, T:0.46
Consensus pattern (110 bp):
ATATAATATATATTTTTAAAAATCGTTTTCAAAAATATATAATATATATTTTCAAAAATATTTTC
AAAAACTATATTATATATATATATGTTTTCAAAATTTCCAAAACT
Found at i:281723 original size:51 final size:52
Alignment explanation
Indices: 281664--281776 Score: 183
Period size: 52 Copynumber: 2.2 Consensus size: 52
281654 AAGATTGAAT
* *
281664 TTATTATTTTATTAGGAATTAA-GATAGAGTTAAAATATCATCCTTAGTTTA
1 TTATTATTTTATTAGGAATTAAGGATAGAATGAAAATATCATCCTTAGTTTA
* *
281715 TTATTATTTTATTAGGAATTAAGGATAGAATGAAAATATTATCTTTAGTTTA
1 TTATTATTTTATTAGGAATTAAGGATAGAATGAAAATATCATCCTTAGTTTA
281767 TTATTATTTT
1 TTATTATTTT
281777 TATTTTATTA
Statistics
Matches: 57, Mismatches: 4, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
51 22 0.39
52 35 0.61
ACGTcount: A:0.36, C:0.04, G:0.12, T:0.49
Consensus pattern (52 bp):
TTATTATTTTATTAGGAATTAAGGATAGAATGAAAATATCATCCTTAGTTTA
Found at i:281773 original size:17 final size:17
Alignment explanation
Indices: 281751--281786 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
281741 AGAATGAAAA
281751 TATTATCTTTAGTTTAT
1 TATTATCTTTAGTTTAT
* *
281768 TATTATTTTTATTTTAT
1 TATTATCTTTAGTTTAT
281785 TA
1 TA
281787 ATTAGTTACT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.25, C:0.03, G:0.03, T:0.69
Consensus pattern (17 bp):
TATTATCTTTAGTTTAT
Found at i:285105 original size:24 final size:25
Alignment explanation
Indices: 285069--285117 Score: 64
Period size: 24 Copynumber: 2.0 Consensus size: 25
285059 ATGAATACCC
* * *
285069 AAAATCAACTCAT-GGAATACATTT
1 AAAAACAAATCATGGGAAAACATTT
285093 AAAAACAAATCATGGGAAAACATTT
1 AAAAACAAATCATGGGAAAACATTT
285118 TCTTCTGACA
Statistics
Matches: 21, Mismatches: 3, Indels: 1
0.84 0.12 0.04
Matches are distributed among these distances:
24 11 0.52
25 10 0.48
ACGTcount: A:0.51, C:0.14, G:0.10, T:0.24
Consensus pattern (25 bp):
AAAAACAAATCATGGGAAAACATTT
Found at i:290566 original size:31 final size:31
Alignment explanation
Indices: 290528--290683 Score: 251
Period size: 31 Copynumber: 5.0 Consensus size: 31
290518 AGGGTCGAGG
290528 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
290559 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
290590 ATTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
*
290621 GTTTACCTATGTTCTTTGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
290652 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
290683 G
1 G
290684 GTCCTTCGGG
Statistics
Matches: 117, Mismatches: 7, Indels: 2
0.93 0.06 0.02
Matches are distributed among these distances:
31 116 0.99
32 1 0.01
ACGTcount: A:0.21, C:0.19, G:0.22, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:295071 original size:31 final size:31
Alignment explanation
Indices: 295033--295188 Score: 269
Period size: 31 Copynumber: 5.0 Consensus size: 31
295023 AGGGTCGAGG
295033 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
295064 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
295095 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
295126 GTTTACCTATGTTCTTCGGGACATATGGACT
1 GTTTACCTATGTTCTTCGGGACATATGGACT
* * *
295157 GATTACCTAGGTTCTTCGGAATC-TATGGACT
1 GTTTACCTATGTTCTTCGGGA-CATATGGACT
295188 G
1 G
295189 GTCCTTCGGG
Statistics
Matches: 121, Mismatches: 3, Indels: 2
0.96 0.02 0.02
Matches are distributed among these distances:
31 120 0.99
32 1 0.01
ACGTcount: A:0.20, C:0.19, G:0.23, T:0.38
Consensus pattern (31 bp):
GTTTACCTATGTTCTTCGGGACATATGGACT
Found at i:302926 original size:19 final size:19
Alignment explanation
Indices: 302882--302933 Score: 88
Period size: 19 Copynumber: 2.8 Consensus size: 19
302872 ATTGGATGGA
*
302882 GAAATGCCAAGAAAGTTTT
1 GAAATGTCAAGAAAGTTTT
302901 GAAATGTCAAGAAAGTTTT
1 GAAATGTCAAGAAAGTTTT
302920 GAAATGTCAA-AAAG
1 GAAATGTCAAGAAAG
302934 AATAGTAACA
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
18 4 0.12
19 28 0.88
ACGTcount: A:0.46, C:0.08, G:0.21, T:0.25
Consensus pattern (19 bp):
GAAATGTCAAGAAAGTTTT
Found at i:306212 original size:4 final size:4
Alignment explanation
Indices: 306203--306238 Score: 72
Period size: 4 Copynumber: 9.0 Consensus size: 4
306193 ACTGCTCTAA
306203 AATG AATG AATG AATG AATG AATG AATG AATG AATG
1 AATG AATG AATG AATG AATG AATG AATG AATG AATG
306239 GATGTTAATG
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
4 32 1.00
ACGTcount: A:0.50, C:0.00, G:0.25, T:0.25
Consensus pattern (4 bp):
AATG
Found at i:306340 original size:44 final size:44
Alignment explanation
Indices: 306277--306497 Score: 354
Period size: 44 Copynumber: 5.0 Consensus size: 44
306267 TATTACCGAA
*
306277 ATAAAT-AAAACTGCATAACGGTGCATTATTGGCAGAAAGGTGCC
1 ATAAATGAAAA-TGCATAACGGTGCATTATTGGCAGAAAAGTGCC
* *
306321 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAAGTGCC
* *
306365 ATAAATGAAAATACATAACGGTGCATTATTGGCAGAAATGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAAGTGCC
* *
306409 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAAATGTC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAAGTGCC
*
306453 ATAAATGAAAATGCATAACGGTGCATTATTGGTAGAAAAGTGCC
1 ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAAGTGCC
306497 A
1 A
306498 CTTATGGTAT
Statistics
Matches: 165, Mismatches: 11, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
44 161 0.98
45 4 0.02
ACGTcount: A:0.41, C:0.13, G:0.22, T:0.25
Consensus pattern (44 bp):
ATAAATGAAAATGCATAACGGTGCATTATTGGCAGAAAAGTGCC
Found at i:321447 original size:23 final size:23
Alignment explanation
Indices: 321421--321507 Score: 120
Period size: 23 Copynumber: 3.7 Consensus size: 23
321411 AACACATGCC
* *
321421 ATTTTATAGAATAAATTAAATAT
1 ATTTTATAGAATAAATTTAATTT
321444 ATTTTATAGAATAAATTTAATTT
1 ATTTTATAGAATAAATTTAATTT
* *
321467 ATTCTATAAAATATATATTTAATTT
1 ATTTTATAGAATA-A-ATTTAATTT
321492 ATTTTATAGAATAAAT
1 ATTTTATAGAATAAAT
321508 AAACAACTTT
Statistics
Matches: 56, Mismatches: 6, Indels: 4
0.85 0.09 0.06
Matches are distributed among these distances:
23 34 0.61
24 2 0.04
25 20 0.36
ACGTcount: A:0.47, C:0.01, G:0.03, T:0.48
Consensus pattern (23 bp):
ATTTTATAGAATAAATTTAATTT
Found at i:321492 original size:25 final size:25
Alignment explanation
Indices: 321458--321529 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 25
321448 TATAGAATAA
*
321458 ATTTAATTTATTCTATAAAATATAT
1 ATTTAATTTATTCTATAAAATAAAT
* *
321483 ATTTAATTTATTTTATAGAATAAAT
1 ATTTAATTTATTCTATAAAATAAAT
***
321508 AAACAACTTTATTCTATAAAAT
1 ATTTAA-TTTATTCTATAAAAT
321530 GTTAAATGTA
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
25 25 0.66
26 13 0.34
ACGTcount: A:0.46, C:0.06, G:0.01, T:0.47
Consensus pattern (25 bp):
ATTTAATTTATTCTATAAAATAAAT
Found at i:321967 original size:21 final size:21
Alignment explanation
Indices: 321924--321968 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
321914 TAAATATAAT
* *
321924 AATAAAAATATAACAAGATAA
1 AATAAAAATATAACAAAACAA
* *
321945 AATAAATATATAATAAAACAA
1 AATAAAAATATAACAAAACAA
321966 AAT
1 AAT
321969 GGAAAAAACA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.71, C:0.04, G:0.02, T:0.22
Consensus pattern (21 bp):
AATAAAAATATAACAAAACAA
Found at i:322471 original size:28 final size:27
Alignment explanation
Indices: 322416--322471 Score: 78
Period size: 28 Copynumber: 2.1 Consensus size: 27
322406 ATAGAAAATT
* *
322416 AAATGCTGGAAATTAAAGGGACTGAAA
1 AAATGCTGAAAATTAAAGGGACAGAAA
322443 AAATGCATGAAAATTAAAGGGA-AGAAA
1 AAATGC-TGAAAATTAAAGGGACAGAAA
322470 AA
1 AA
322472 TAAAATGTTG
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
27 12 0.46
28 14 0.54
ACGTcount: A:0.55, C:0.05, G:0.23, T:0.16
Consensus pattern (27 bp):
AAATGCTGAAAATTAAAGGGACAGAAA
Found at i:324356 original size:40 final size:40
Alignment explanation
Indices: 324303--324441 Score: 125
Period size: 40 Copynumber: 3.4 Consensus size: 40
324293 ATGGAACTGC
* * *
324303 TCCTTCGTATTGAGGAGATATGGTCGGTTTACAACATTGT
1 TCCTTCGTGTTGAGGAGATATGGTCGGTTGACGACATTGT
* * * ** * * *
324343 TCCTTCGTGTTGAGGAAGTCTGATTGTCTGAAGATGACACTGC
1 TCCTTCGTGTTGAGG-AG-AT-ATGGTCGGTTGACGACATTGT
* * *
324386 TCCTTCGTGTTGAGAAGATCTGATCGGTTGACGACATTGT
1 TCCTTCGTGTTGAGGAGATATGGTCGGTTGACGACATTGT
324426 TCCTTCGTGTTGAGGA
1 TCCTTCGTGTTGAGGA
324442 AATCTAGCTA
Statistics
Matches: 73, Mismatches: 23, Indels: 6
0.72 0.23 0.06
Matches are distributed among these distances:
40 41 0.56
41 3 0.04
42 3 0.04
43 26 0.36
ACGTcount: A:0.20, C:0.17, G:0.27, T:0.35
Consensus pattern (40 bp):
TCCTTCGTGTTGAGGAGATATGGTCGGTTGACGACATTGT
Found at i:324392 original size:83 final size:83
Alignment explanation
Indices: 324260--324442 Score: 260
Period size: 83 Copynumber: 2.2 Consensus size: 83
324250 ATGACATTAC
* * * *
324260 TCCTTCTTGTTGAGGAAGTATGGTTGTCTGAGGATGGAACTGCTCCTTCGTATTGAGGAGATATG
1 TCCTTCGTGTTGAGGAAGTATGATTGTCTGAAGATGGAACTGCTCCTTCGTATTGAGAAGATATG
* *
324325 GTCGGTTTACAACATTGT
66 ATCGGTTGACAACATTGT
* * *
324343 TCCTTCGTGTTGAGGAAGTCTGATTGTCTGAAGAT-GACACTGCTCCTTCGTGTTGAGAAGATCT
1 TCCTTCGTGTTGAGGAAGTATGATTGTCTGAAGATGGA-ACTGCTCCTTCGTATTGAGAAGATAT
*
324407 GATCGGTTGACGACATTGT
65 GATCGGTTGACAACATTGT
324426 TCCTTCGTGTTGAGGAA
1 TCCTTCGTGTTGAGGAA
324443 ATCTAGCTAT
Statistics
Matches: 89, Mismatches: 10, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
82 2 0.02
83 87 0.98
ACGTcount: A:0.20, C:0.16, G:0.28, T:0.35
Consensus pattern (83 bp):
TCCTTCGTGTTGAGGAAGTATGATTGTCTGAAGATGGAACTGCTCCTTCGTATTGAGAAGATATG
ATCGGTTGACAACATTGT
Found at i:324639 original size:21 final size:21
Alignment explanation
Indices: 324614--324656 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
324604 TATTTGAATG
324614 AAAATAAATGAGTGGAAGGAA
1 AAAATAAATGAGTGGAAGGAA
324635 AAAATAAATGAGTGGAAGGAA
1 AAAATAAATGAGTGGAAGGAA
324656 A
1 A
324657 TTCGTTTCAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.58, C:0.00, G:0.28, T:0.14
Consensus pattern (21 bp):
AAAATAAATGAGTGGAAGGAA
Found at i:324914 original size:104 final size:101
Alignment explanation
Indices: 324691--324924 Score: 242
Period size: 104 Copynumber: 2.3 Consensus size: 101
324681 GGTGAGATAA
* * *
324691 AATTTTGTTTCAAGTGAAAC-ATTTCAAATTTGCGTTTCAAGGGAAAACTGCCTCAATCGAGAAG
1 AATTTTGTTTCAAGTGAAACAATTTCAAATTTACGTTTCAAGGGAAAACTACCTCAA-CGAGAAC
* * **
324755 AAATTTATTTTTAAGAAAAACAATCTCAAATGTTATC
65 AAAATTATTTTTAAGAAAAACAATCTCAAACGAGATC
* * * ** *
324792 AATTTTGTTTCAAATGAAACAATTTCCAACTTTTTATGTTTGGAGGGAAAACTATCTCAA-GAGA
1 AATTTTGTTTCAAGTGAAACAATTT-CAA--ATTTACGTTTCAAGGGAAAACTACCTCAACGAGA
* *
324856 GACAAAATTAGTTTTTAAG-AAAACTATCTCAAGCGAGATC
63 -ACAAAATTA-TTTTTAAGAAAAACAATCTCAAACGAGATC
324896 AATTTTGTTTCAAGTGAAA-AATTTTCAAA
1 AATTTTGTTTCAAGTGAAACAA-TTTCAAA
324925 ATTTGGAGAA
Statistics
Matches: 109, Mismatches: 17, Indels: 14
0.78 0.12 0.10
Matches are distributed among these distances:
101 19 0.17
102 4 0.04
103 12 0.11
104 44 0.40
105 30 0.28
ACGTcount: A:0.39, C:0.13, G:0.14, T:0.34
Consensus pattern (101 bp):
AATTTTGTTTCAAGTGAAACAATTTCAAATTTACGTTTCAAGGGAAAACTACCTCAACGAGAACA
AAATTATTTTTAAGAAAAACAATCTCAAACGAGATC
Found at i:327130 original size:24 final size:25
Alignment explanation
Indices: 327076--327142 Score: 95
Period size: 25 Copynumber: 2.7 Consensus size: 25
327066 TTTTATTTTC
327076 AAAATTTTGAAAAATA-TTAATTAA
1 AAAATTTTGAAAAATATTTAATTAA
327100 AAGAATTTTGAAAAATATTTAA-TAA
1 AA-AATTTTGAAAAATATTTAATTAA
327125 AAAA-TTTGAAAACATATT
1 AAAATTTTGAAAA-ATATT
327143 GCCCCTTTCT
Statistics
Matches: 40, Mismatches: 0, Indels: 6
0.87 0.00 0.13
Matches are distributed among these distances:
23 8 0.20
24 9 0.22
25 19 0.47
26 4 0.10
ACGTcount: A:0.57, C:0.01, G:0.06, T:0.36
Consensus pattern (25 bp):
AAAATTTTGAAAAATATTTAATTAA
Found at i:330067 original size:22 final size:22
Alignment explanation
Indices: 330042--330127 Score: 127
Period size: 22 Copynumber: 3.9 Consensus size: 22
330032 TGTTTGAGCC
*
330042 TTCATAGGGGTATTGACACCCA
1 TTCATAGGGGTATTGATACCCA
* *
330064 TTCATAGGGGTATCGGTACCCA
1 TTCATAGGGGTATTGATACCCA
*
330086 TTCATAGGGGTATTGATACACA
1 TTCATAGGGGTATTGATACCCA
*
330108 TTCATAGGGGTATCGATACC
1 TTCATAGGGGTATTGATACC
330128 TCTTAATATT
Statistics
Matches: 56, Mismatches: 8, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 56 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (22 bp):
TTCATAGGGGTATTGATACCCA
Found at i:330092 original size:44 final size:44
Alignment explanation
Indices: 330042--330127 Score: 145
Period size: 44 Copynumber: 2.0 Consensus size: 44
330032 TGTTTGAGCC
* *
330042 TTCATAGGGGTATTGACACCCATTCATAGGGGTATCGGTACCCA
1 TTCATAGGGGTATTGACACACATTCATAGGGGTATCGATACCCA
*
330086 TTCATAGGGGTATTGATACACATTCATAGGGGTATCGATACC
1 TTCATAGGGGTATTGACACACATTCATAGGGGTATCGATACC
330128 TCTTAATATT
Statistics
Matches: 39, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
44 39 1.00
ACGTcount: A:0.27, C:0.20, G:0.24, T:0.29
Consensus pattern (44 bp):
TTCATAGGGGTATTGACACACATTCATAGGGGTATCGATACCCA
Found at i:332022 original size:3 final size:3
Alignment explanation
Indices: 332014--332064 Score: 50
Period size: 3 Copynumber: 17.3 Consensus size: 3
332004 TAATGCCTAC
* * ** *
332014 CTT CTT CTT CTT CTT CTT CTT GTT TTT CTT C-T CTT CAC CTT CTT CCT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
332061 CTT C
1 CTT C
332065 CTTCAACATC
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
2 2 0.05
3 36 0.95
ACGTcount: A:0.02, C:0.35, G:0.02, T:0.61
Consensus pattern (3 bp):
CTT
Found at i:333557 original size:19 final size:19
Alignment explanation
Indices: 333533--333569 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
333523 ATTTTGCACT
*
333533 ATGGTATCGATACCCTTTC
1 ATGGTATCAATACCCTTTC
333552 ATGGTATCAATACCCTTT
1 ATGGTATCAATACCCTTT
333570 TTGCATTCAA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.24, C:0.24, G:0.14, T:0.38
Consensus pattern (19 bp):
ATGGTATCAATACCCTTTC
Found at i:333616 original size:21 final size:22
Alignment explanation
Indices: 333590--333667 Score: 95
Period size: 22 Copynumber: 3.6 Consensus size: 22
333580 TGTTTGAGCC
333590 TTCATAGGGGTATTAATAC-CA
1 TTCATAGGGGTATTAATACTCA
* * * *
333611 TTCATATGGGTATCAGTACTCT
1 TTCATAGGGGTATTAATACTCA
*
333633 TTCATAGGGGTATTGATACTCA
1 TTCATAGGGGTATTAATACTCA
*
333655 TTCATAGAGGTAT
1 TTCATAGGGGTAT
333668 CAGTACGTCT
Statistics
Matches: 46, Mismatches: 10, Indels: 1
0.81 0.18 0.02
Matches are distributed among these distances:
21 16 0.35
22 30 0.65
ACGTcount: A:0.28, C:0.14, G:0.21, T:0.37
Consensus pattern (22 bp):
TTCATAGGGGTATTAATACTCA
Found at i:333638 original size:22 final size:21
Alignment explanation
Indices: 333611--333678 Score: 66
Period size: 22 Copynumber: 3.0 Consensus size: 21
333601 ATTAATACCA
333611 TTCATATGGGTATCAGTACTCT
1 TTCATA-GGGTATCAGTACTCT
* *
333633 TTCATAGGGGTAT-TGATACTCA
1 TTCATA-GGGTATCAG-TACTCT
333655 TTCATAGAGGTATCAGTACGTCT
1 TTCATAG-GGTATCAGTAC-TCT
333678 T
1 T
333679 AATATTTTTC
Statistics
Matches: 37, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
21 2 0.05
22 31 0.84
23 4 0.11
ACGTcount: A:0.25, C:0.16, G:0.21, T:0.38
Consensus pattern (21 bp):
TTCATAGGGTATCAGTACTCT
Found at i:333643 original size:43 final size:45
Alignment explanation
Indices: 333590--333678 Score: 139
Period size: 43 Copynumber: 2.0 Consensus size: 45
333580 TGTTTGAGCC
333590 TTCATAGGGGTATTAATAC-CATTCATATG-GGTATCAGTAC-TCT
1 TTCATAGGGGTATTAATACTCATTCATA-GAGGTATCAGTACGTCT
*
333633 TTCATAGGGGTATTGATACTCATTCATAGAGGTATCAGTACGTCT
1 TTCATAGGGGTATTAATACTCATTCATAGAGGTATCAGTACGTCT
333678 T
1 T
333679 AATATTTTTC
Statistics
Matches: 42, Mismatches: 1, Indels: 4
0.89 0.02 0.09
Matches are distributed among these distances:
43 19 0.45
44 19 0.45
45 4 0.10
ACGTcount: A:0.27, C:0.16, G:0.20, T:0.37
Consensus pattern (45 bp):
TTCATAGGGGTATTAATACTCATTCATAGAGGTATCAGTACGTCT
Found at i:335784 original size:28 final size:29
Alignment explanation
Indices: 335742--335800 Score: 86
Period size: 28 Copynumber: 2.1 Consensus size: 29
335732 TTTTACATCA
*
335742 AAGATAAAAATAATAATAATA-AATAGAAC
1 AAGATAAAAATAAT-ATAATATAATAAAAC
335771 AAGAT-AAAATAATATAATATAATAAAAC
1 AAGATAAAAATAATATAATATAATAAAAC
335799 AA
1 AA
335801 AATGAAATGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.21
28 17 0.61
29 5 0.18
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.22
Consensus pattern (29 bp):
AAGATAAAAATAATATAATATAATAAAAC
Found at i:335808 original size:28 final size:28
Alignment explanation
Indices: 335748--335808 Score: 79
Period size: 28 Copynumber: 2.2 Consensus size: 28
335738 ATCAAAGATA
* *
335748 AAAATAATAATAATAAATAGAACAAGAT
1 AAAATAATAATAATAAATAAAACAAAAT
335776 AAAATAAT-ATAATATAATAAAACAAAAT
1 AAAATAATAATAATA-AATAAAACAAAAT
*
335804 GAAAT
1 AAAAT
335809 GAAAAAAAAA
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
27 6 0.21
28 23 0.79
ACGTcount: A:0.69, C:0.03, G:0.05, T:0.23
Consensus pattern (28 bp):
AAAATAATAATAATAAATAAAACAAAAT
Found at i:336290 original size:29 final size:29
Alignment explanation
Indices: 336231--336299 Score: 70
Period size: 29 Copynumber: 2.3 Consensus size: 29
336221 TAAATATATA
* * *
336231 AAATTAAATGCTGGAAATTAAAGGGACTG
1 AAATAAAATGCTGAAAACTAAAGGGACTG
336260 -AATAAAATGCATGAAAACTAAAGGG-CATG
1 AAATAAAATGC-TGAAAACTAAAGGGAC-TG
336289 AAAATAAAATG
1 -AAATAAAATG
336300 TTGGAATTTA
Statistics
Matches: 33, Mismatches: 3, Indels: 6
0.79 0.07 0.14
Matches are distributed among these distances:
28 10 0.30
29 14 0.42
31 9 0.27
ACGTcount: A:0.52, C:0.07, G:0.20, T:0.20
Consensus pattern (29 bp):
AAATAAAATGCTGAAAACTAAAGGGACTG
Found at i:336564 original size:32 final size:32
Alignment explanation
Indices: 336512--336607 Score: 115
Period size: 32 Copynumber: 2.9 Consensus size: 32
336502 AGTAAGTAAT
*
336512 AACAATAAAAATAAAAAGTTAGTATGTTAGTAGG
1 AACAAT-AAAAT-AAAAGTTAGTATGTTAGTACG
* *
336546 AACAA-ATAAATAAAAGTTAGAATGTTAGTTCG
1 AACAATA-AAATAAAAGTTAGTATGTTAGTACG
336578 AACAATAAAATAAAAGTTA-TAATGTTAGTA
1 AACAATAAAATAAAAGTTAGT-ATGTTAGTA
336608 AGCTAGTGAC
Statistics
Matches: 54, Mismatches: 5, Indels: 8
0.81 0.07 0.12
Matches are distributed among these distances:
32 44 0.81
33 5 0.09
34 5 0.09
ACGTcount: A:0.53, C:0.04, G:0.15, T:0.28
Consensus pattern (32 bp):
AACAATAAAATAAAAGTTAGTATGTTAGTACG
Found at i:337195 original size:24 final size:24
Alignment explanation
Indices: 337168--337229 Score: 79
Period size: 24 Copynumber: 2.6 Consensus size: 24
337158 CTGACGAACG
337168 GATTTGGTGCTGGTGATGACAGCT
1 GATTTGGTGCTGGTGATGACAGCT
* ** *
337192 GATTTGATGCTGGTGATGGTAGTT
1 GATTTGGTGCTGGTGATGACAGCT
*
337216 GATTTCGTGCTGGT
1 GATTTGGTGCTGGT
337230 AGACTCTCAC
Statistics
Matches: 32, Mismatches: 6, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
24 32 1.00
ACGTcount: A:0.15, C:0.10, G:0.37, T:0.39
Consensus pattern (24 bp):
GATTTGGTGCTGGTGATGACAGCT
Found at i:337744 original size:2 final size:2
Alignment explanation
Indices: 337737--337767 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
337727 ATATAACATA
337737 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
337768 ATAATTTTAT
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:339131 original size:32 final size:31
Alignment explanation
Indices: 339063--339182 Score: 138
Period size: 30 Copynumber: 3.9 Consensus size: 31
339053 GAATGACCTA
* *
339063 TCCATATGTTCCGAAGAACATAGGTAA-TTG
1 TCCATATGTCCCGAAGGACATAGGTAACTTG
339093 TCCATATGTCCCGAAGGACATAGGTAATCTTG
1 TCCATATGTCCCGAAGGACATAGGTAA-CTTG
* * *
339125 TCCATATATCCCAAAGGACATAGGTAAAC-TA
1 TCCATATGTCCCGAAGGACATAGGT-AACTTG
* *
339156 TCCATATG-CTCGAAAGACATAGGTAAC
1 TCCATATGTCCCGAAGGACATAGGTAAC
339183 CCTCGACTCT
Statistics
Matches: 78, Mismatches: 9, Indels: 7
0.83 0.10 0.07
Matches are distributed among these distances:
29 3 0.04
30 38 0.49
31 8 0.10
32 27 0.35
33 2 0.03
ACGTcount: A:0.35, C:0.21, G:0.18, T:0.26
Consensus pattern (31 bp):
TCCATATGTCCCGAAGGACATAGGTAACTTG
Found at i:339440 original size:2 final size:2
Alignment explanation
Indices: 339433--339473 Score: 82
Period size: 2 Copynumber: 20.5 Consensus size: 2
339423 TGGCTTATCT
339433 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
339474 TCACATACTT
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 39 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:345674 original size:25 final size:25
Alignment explanation
Indices: 345622--345672 Score: 84
Period size: 26 Copynumber: 2.0 Consensus size: 25
345612 TTTGAGAGAA
*
345622 TATTTTATTTAAAAGTATTTATTTT
1 TATTTTATTTAAAAATATTTATTTT
345647 TATTTTCATTTAAAAATATTTATTTT
1 TATTTT-ATTTAAAAATATTTATTTT
345673 ATGTTAAAAT
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
25 6 0.25
26 18 0.75
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.63
Consensus pattern (25 bp):
TATTTTATTTAAAAATATTTATTTT
Found at i:349422 original size:16 final size:17
Alignment explanation
Indices: 349394--349437 Score: 63
Period size: 16 Copynumber: 2.6 Consensus size: 17
349384 GTAAATTAGG
349394 TCGGGTCGGGTCAATTT
1 TCGGGTCGGGTCAATTT
349411 TCGGGT-GGGTCAATTT
1 TCGGGTCGGGTCAATTT
**
349427 TTAGGTCGGGT
1 TCGGGTCGGGT
349438 GACTATTGGA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
16 14 0.58
17 10 0.42
ACGTcount: A:0.11, C:0.14, G:0.39, T:0.36
Consensus pattern (17 bp):
TCGGGTCGGGTCAATTT
Found at i:349435 original size:21 final size:19
Alignment explanation
Indices: 349389--349438 Score: 52
Period size: 16 Copynumber: 2.6 Consensus size: 19
349379 GTATGGTAAA
349389 TTAGGTCGGGTCGGGTCAAT
1 TTAGGTCGGGT-GGGTCAAT
349409 TT---TCGGGTGGGTCAATTT
1 TTAGGTCGGGTGGGTCAA--T
349427 TTAGGTCGGGTG
1 TTAGGTCGGGTG
349439 ACTATTGGAT
Statistics
Matches: 25, Mismatches: 0, Indels: 9
0.74 0.00 0.26
Matches are distributed among these distances:
16 7 0.28
17 6 0.24
18 3 0.12
20 2 0.08
21 7 0.28
ACGTcount: A:0.12, C:0.12, G:0.40, T:0.36
Consensus pattern (19 bp):
TTAGGTCGGGTGGGTCAAT
Found at i:349513 original size:32 final size:32
Alignment explanation
Indices: 349477--349587 Score: 93
Period size: 32 Copynumber: 3.5 Consensus size: 32
349467 TATCAATATT
* *
349477 AGATCGATTGATTTTTGGGTCGGGTTAATACC
1 AGATCGATTGATTTTTGGGTCGAGTCAATACC
* **
349509 AGATCGATT-ATATTTCGGGTCGAGTCAATATT
1 AGATCGATTGAT-TTTTGGGTCGAGTCAATACC
* * * *
349541 TGATCGGTTGATTTTTGGATC-ATGTCAATATC
1 AGATCGATTGATTTTTGGGTCGA-GTCAATACC
349573 -GAATCGATTGATTTT
1 AG-ATCGATTGATTTT
349588 CGATTTAGGT
Statistics
Matches: 64, Mismatches: 11, Indels: 8
0.77 0.13 0.10
Matches are distributed among these distances:
31 4 0.06
32 58 0.91
33 2 0.03
ACGTcount: A:0.24, C:0.12, G:0.23, T:0.41
Consensus pattern (32 bp):
AGATCGATTGATTTTTGGGTCGAGTCAATACC
Found at i:349579 original size:64 final size:64
Alignment explanation
Indices: 349456--349589 Score: 148
Period size: 64 Copynumber: 2.1 Consensus size: 64
349446 GATCAGTTGT
* * * *
349456 TTTTCGGTTCGTA-TCAATATTAGATCGATTGATTTTTGGGTCGGGTTAATACCAGATCGATT-A
1 TTTTCGGGTCG-AGTCAATATTAGATCGATTGATTTTTGGATCAGGTCAATACCAGATCGATTGA
* * * *
349519 TATTTCGGGTCGAGTCAATATTTGATCGGTTGATTTTTGGATCATGTCAATATC-GAATCGATTG
1 T-TTTCGGGTCGAGTCAATATTAGATCGATTGATTTTTGGATCAGGTCAATACCAG-ATCGATTG
349583 A
64 A
349584 TTTTCG
1 TTTTCG
349590 ATTTAGGTCA
Statistics
Matches: 59, Mismatches: 8, Indels: 7
0.80 0.11 0.09
Matches are distributed among these distances:
63 3 0.05
64 54 0.92
65 2 0.03
ACGTcount: A:0.23, C:0.13, G:0.22, T:0.42
Consensus pattern (64 bp):
TTTTCGGGTCGAGTCAATATTAGATCGATTGATTTTTGGATCAGGTCAATACCAGATCGATTGA
Found at i:352677 original size:3 final size:3
Alignment explanation
Indices: 352669--352706 Score: 58
Period size: 3 Copynumber: 12.0 Consensus size: 3
352659 TATGTAAAAT
352669 TAA TAA TAA TAA TAA TAA TTAA TAA TAA TTAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA TAA -TAA TAA TAA
352707 AAAATAAATA
Statistics
Matches: 33, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
3 27 0.82
4 6 0.18
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (3 bp):
TAA
Found at i:352691 original size:13 final size:13
Alignment explanation
Indices: 352666--352706 Score: 55
Period size: 16 Copynumber: 2.9 Consensus size: 13
352656 TAATATGTAA
352666 AATTAATAATAAT
1 AATTAATAATAAT
352679 AATAATAATTAATAAT
1 AAT--TAA-TAATAAT
352695 AATTAATAATAA
1 AATTAATAATAA
352707 AAAATAAATA
Statistics
Matches: 25, Mismatches: 0, Indels: 6
0.81 0.00 0.19
Matches are distributed among these distances:
13 9 0.36
14 3 0.12
15 3 0.12
16 10 0.40
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (13 bp):
AATTAATAATAAT
Found at i:352693 original size:10 final size:10
Alignment explanation
Indices: 352666--352706 Score: 75
Period size: 10 Copynumber: 4.2 Consensus size: 10
352656 TAATATGTAA
352666 AATTAATAAT
1 AATTAATAAT
352676 AA-TAATAAT
1 AATTAATAAT
352685 AATTAATAAT
1 AATTAATAAT
352695 AATTAATAAT
1 AATTAATAAT
352705 AA
1 AA
352707 AAAATAAATA
Statistics
Matches: 30, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
9 9 0.30
10 21 0.70
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (10 bp):
AATTAATAAT
Found at i:353140 original size:141 final size:141
Alignment explanation
Indices: 352948--353218 Score: 411
Period size: 141 Copynumber: 1.9 Consensus size: 141
352938 CTGGTCAAGG
* ** *
352948 GATGACACGGCTCATACGCGATGAAGAGTTCTGGTCATCTTTAAGAAGGGTGATAACTCGGTTCC
1 GATGACACGGCTCATACACGATGAAGAACTCTGGCCATCTTTAAGAAGGGTGATAACTCGGTTCC
353013 TACGTGATGAGGACGGCTGATTAT-CTAAGGTTGACACGGCTCCTACGTGATGAGGA-AGTCTGG
66 TACGTGATGAGGACGGCTGATTATCCTAAGGTTGACAC-GCTCCTACGTGATGAGGAGA-TCTGG
353076 TCGTCTAAGGGTA
129 TCGTCTAAGGGTA
* * * *
353089 GATGACATGGTTCATACATGATGAAGAACTCTGGCCATCTTTAGGAAGGGTGATAACTCGGTTCC
1 GATGACACGGCTCATACACGATGAAGAACTCTGGCCATCTTTAAGAAGGGTGATAACTCGGTTCC
* * *
353154 TACGTGATGAGGACGGCTGGTTATCCTAATGTTGACACTCTCCTACGTGATGAGGAGATCTGGTC
66 TACGTGATGAGGACGGCTGATTATCCTAAGGTTGACACGCTCCTACGTGATGAGGAGATCTGGTC
353219 AGTTGATGTT
Statistics
Matches: 117, Mismatches: 11, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
141 104 0.89
142 13 0.11
ACGTcount: A:0.25, C:0.19, G:0.29, T:0.27
Consensus pattern (141 bp):
GATGACACGGCTCATACACGATGAAGAACTCTGGCCATCTTTAAGAAGGGTGATAACTCGGTTCC
TACGTGATGAGGACGGCTGATTATCCTAAGGTTGACACGCTCCTACGTGATGAGGAGATCTGGTC
GTCTAAGGGTA
Found at i:354193 original size:16 final size:16
Alignment explanation
Indices: 354172--354206 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
354162 CTTTATTTAT
354172 TTTTTC-TTCTTTTTCA
1 TTTTTCATT-TTTTTCA
354188 TTTTTCATTTTTTTCA
1 TTTTTCATTTTTTTCA
354204 TTT
1 TTT
354207 CCTTTTTTTT
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
16 16 0.89
17 2 0.11
ACGTcount: A:0.09, C:0.14, G:0.00, T:0.77
Consensus pattern (16 bp):
TTTTTCATTTTTTTCA
Found at i:354207 original size:21 final size:21
Alignment explanation
Indices: 354183--354222 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
354173 TTTTCTTCTT
354183 TTTCATTTTTCATTTTTTTCA
1 TTTCATTTTTCATTTTTTTCA
* **
354204 TTTCCTTTTTTTTTTTTTT
1 TTTCATTTTTCATTTTTTT
354223 TTAAAAGTGT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.07, C:0.12, G:0.00, T:0.80
Consensus pattern (21 bp):
TTTCATTTTTCATTTTTTTCA
Found at i:367690 original size:3 final size:3
Alignment explanation
Indices: 367682--367727 Score: 58
Period size: 3 Copynumber: 15.0 Consensus size: 3
367672 TATGTAAAAT
*
367682 TAA TAA TAA TAA TAA TAA TTAA TAA TAAA TAA TAA -AA AAA TAA TAA
1 TAA TAA TAA TAA TAA TAA -TAA TAA T-AA TAA TAA TAA TAA TAA TAA
367728 AAGACCCGGA
Statistics
Matches: 39, Mismatches: 1, Indels: 6
0.85 0.02 0.13
Matches are distributed among these distances:
2 2 0.05
3 31 0.79
4 6 0.15
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (3 bp):
TAA
Found at i:367706 original size:10 final size:10
Alignment explanation
Indices: 367679--367716 Score: 60
Period size: 10 Copynumber: 3.9 Consensus size: 10
367669 TAATATGTAA
367679 AATTAATAAT
1 AATTAATAAT
367689 AA-TAATAAT
1 AATTAATAAT
367698 AATTAATAAT
1 AATTAATAAT
*
367708 AAATAATAA
1 AATTAATAA
367717 AAAAATAATA
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
9 9 0.35
10 17 0.65
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (10 bp):
AATTAATAAT
Found at i:369224 original size:21 final size:20
Alignment explanation
Indices: 369138--369295 Score: 77
Period size: 21 Copynumber: 7.8 Consensus size: 20
369128 AAATGACCAA
**
369138 CAAAATCGCAACGCGA-AAT
1 CAAAATCGCAACGCGATTTT
* ***
369157 AAAAATCGCAACGCGATCCC
1 CAAAATCGCAACGCGATTTT
* ** *
369177 CAGAATCGCAAATC-AGTTTC
1 CAAAATCGCAACGCGA-TTTT
369197 CAAAATCGCAACGCGATTCTT
1 CAAAATCGCAACGCGATT-TT
* * * * *
369218 GAAAATCGCGATGCGATAGTA
1 CAAAATCGCAACGCGAT-TTT
* **
369239 CAAATTCGCATTGCGATTTT
1 CAAAATCGCAACGCGATTTT
* *
369259 CAATAATCGCAACGCGAATAT
1 CAA-AATCGCAACGCGATTTT
*
369280 GAAAATCGCAACGCGA
1 CAAAATCGCAACGCGA
369296 ACACATAAAT
Statistics
Matches: 102, Mismatches: 31, Indels: 11
0.71 0.22 0.08
Matches are distributed among these distances:
19 16 0.16
20 42 0.41
21 44 0.43
ACGTcount: A:0.38, C:0.25, G:0.18, T:0.20
Consensus pattern (20 bp):
CAAAATCGCAACGCGATTTT
Found at i:369288 original size:20 final size:20
Alignment explanation
Indices: 369263--369456 Score: 76
Period size: 20 Copynumber: 9.7 Consensus size: 20
369253 GATTTTCAAT
* *
369263 AATCGCAACGCGAATATGA-A
1 AATCGCAACGCGAACA-CATA
369283 AATCGCAACGCGAACACATA
1 AATCGCAACGCGAACACATA
* *
369303 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
369323 AATCGCAACGTGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* ****
369343 AATCGCAACGCGTATGGGTA
1 AATCGCAACGCGAACACATA
* * *
369363 AATCGCAATGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
* * *
369383 TATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
** *
369403 AATCGCAACGATAATACATAA
1 AATCGCAACGCGAACACAT-A
* *
369424 AATCGCAACGCGTATC-CGTA
1 AATCGCAACGCG-AACACATA
369444 AATCGCAACGCGA
1 AATCGCAACGCGA
369457 TATTTAAAGC
Statistics
Matches: 139, Mismatches: 28, Indels: 15
0.76 0.15 0.08
Matches are distributed among these distances:
19 3 0.02
20 120 0.86
21 15 0.11
22 1 0.01
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (20 bp):
AATCGCAACGCGAACACATA
Found at i:369308 original size:40 final size:39
Alignment explanation
Indices: 369263--369456 Score: 199
Period size: 40 Copynumber: 4.8 Consensus size: 39
369253 GATTTTCAAT
* ** *
369263 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAAC-CATA
* * *
369303 AATCGCAACGCGTATCCGTAAATCGCAACGTGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
** * * *
369343 AATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCG-AACCATA
* ** *
369383 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAA-CCAT-A
369424 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGA
369457 TATTTAAAGC
Statistics
Matches: 128, Mismatches: 23, Indels: 5
0.82 0.15 0.03
Matches are distributed among these distances:
39 1 0.01
40 94 0.73
41 33 0.26
ACGTcount: A:0.36, C:0.26, G:0.20, T:0.19
Consensus pattern (39 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAACCATA
Found at i:369346 original size:60 final size:60
Alignment explanation
Indices: 369263--369455 Score: 251
Period size: 60 Copynumber: 3.2 Consensus size: 60
369253 GATTTTCAAT
* ** * *
369263 AATCGCAACGCGAATATGAAAATCGCAACGCGAACACATAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* * *** *
369323 AATCGCAACGTGTATCCGTAAATCGCAACGCGTATGGGTAAATCGCAATGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
* **
369383 TATCGCAACGCGTATCCGTAAATCGCAACGATAATACATAAAATCGCAACGCGTATCCGTA
1 AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACAT-AAATCGCAACGCGTATCCGTA
369444 AATCGCAACGCG
1 AATCGCAACGCG
369456 ATATTTAAAG
Statistics
Matches: 111, Mismatches: 21, Indels: 1
0.83 0.16 0.01
Matches are distributed among these distances:
60 80 0.72
61 31 0.28
ACGTcount: A:0.35, C:0.26, G:0.20, T:0.19
Consensus pattern (60 bp):
AATCGCAACGCGTATCCGTAAATCGCAACGCGAATACATAAATCGCAACGCGTATCCGTA
Found at i:369620 original size:21 final size:22
Alignment explanation
Indices: 369594--369638 Score: 74
Period size: 22 Copynumber: 2.1 Consensus size: 22
369584 CTCTCTACGG
369594 CGAAGA-ATCCGTCCCCATCTC
1 CGAAGATATCCGTCCCCATCTC
*
369615 CGAAGATTTCCGTCCCCATCTC
1 CGAAGATATCCGTCCCCATCTC
369637 CG
1 CG
369639 GCGAAATCCC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
21 6 0.27
22 16 0.73
ACGTcount: A:0.20, C:0.42, G:0.16, T:0.22
Consensus pattern (22 bp):
CGAAGATATCCGTCCCCATCTC
Found at i:369859 original size:33 final size:33
Alignment explanation
Indices: 369820--369890 Score: 115
Period size: 33 Copynumber: 2.2 Consensus size: 33
369810 TTCACTTAGA
*
369820 TTTCATTTCGCGTTACGATTCTGTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
* *
369853 TTTCATTTCGCGTTGCTATTCTCTCGTTGCGAT
1 TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
369886 TTTCA
1 TTTCA
369891 AGTTAGTATT
Statistics
Matches: 35, Mismatches: 3, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
33 35 1.00
ACGTcount: A:0.11, C:0.23, G:0.18, T:0.48
Consensus pattern (33 bp):
TTTCATTTCGCGTTACGATTCTCTCGTTGCGAT
Found at i:369999 original size:21 final size:20
Alignment explanation
Indices: 369970--370053 Score: 76
Period size: 20 Copynumber: 4.5 Consensus size: 20
369960 TGCAGAAGAG
369970 TCGC-ACGAGATAAATGAAAA
1 TCGCAACGAGA-AAATGAAAA
* *
369990 TCGCAACGAGAGAATGACAA
1 TCGCAACGAGAAAATGAAAA
370010 TCGCAACGAG---A-G--AA
1 TCGCAACGAGAAAATGAAAA
*
370024 TCGCAACGCG-AAATGAAAA
1 TCGCAACGAGAAAATGAAAA
370043 TCGCAACGAGA
1 TCGCAACGAGA
370054 GAATCGCAAC
Statistics
Matches: 53, Mismatches: 4, Indels: 14
0.75 0.06 0.20
Matches are distributed among these distances:
14 11 0.21
16 2 0.04
17 2 0.04
19 11 0.21
20 21 0.40
21 6 0.11
ACGTcount: A:0.45, C:0.20, G:0.24, T:0.11
Consensus pattern (20 bp):
TCGCAACGAGAAAATGAAAA
Found at i:370005 original size:20 final size:20
Alignment explanation
Indices: 369982--370057 Score: 85
Period size: 20 Copynumber: 4.2 Consensus size: 20
369972 GCACGAGATA
369982 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
*
370002 AATGACAATCGCAAC--GAG
1 AATGAAAATCGCAACGAGAG
*
370020 -A-G--AATCGCAACGCGA-
1 AATGAAAATCGCAACGAGAG
370035 AATGAAAATCGCAACGAGAG
1 AATGAAAATCGCAACGAGAG
370055 AAT
1 AAT
370058 CGCAACGCGA
Statistics
Matches: 47, Mismatches: 2, Indels: 14
0.75 0.03 0.22
Matches are distributed among these distances:
14 9 0.19
16 4 0.09
17 2 0.04
18 3 0.06
19 12 0.26
20 17 0.36
ACGTcount: A:0.47, C:0.18, G:0.24, T:0.11
Consensus pattern (20 bp):
AATGAAAATCGCAACGAGAG
Found at i:370027 original size:14 final size:14
Alignment explanation
Indices: 370008--370064 Score: 60
Period size: 14 Copynumber: 3.7 Consensus size: 14
369998 AGAGAATGAC
370008 AATCGCAACGAGAG
1 AATCGCAACGAGAG
*
370022 AATCGCAACGCGAAATGAA
1 AATCGCAA--CG--A-GAG
370041 AATCGCAACGAGAG
1 AATCGCAACGAGAG
370055 AATCGCAACG
1 AATCGCAACG
370065 CGAAACCAAA
Statistics
Matches: 36, Mismatches: 2, Indels: 10
0.75 0.04 0.21
Matches are distributed among these distances:
14 20 0.56
15 1 0.03
16 2 0.06
17 2 0.06
18 1 0.03
19 10 0.28
ACGTcount: A:0.44, C:0.23, G:0.25, T:0.09
Consensus pattern (14 bp):
AATCGCAACGAGAG
Found at i:370045 original size:33 final size:33
Alignment explanation
Indices: 369988--370069 Score: 137
Period size: 33 Copynumber: 2.5 Consensus size: 33
369978 GATAAATGAA
* *
369988 AATCGCAACGAGAGAATGACAATCGCAACGAGAG
1 AATCGCAACGCGA-AATGAAAATCGCAACGAGAG
370022 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
1 AATCGCAACGCGAAATGAAAATCGCAACGAGAG
370055 AATCGCAACGCGAAA
1 AATCGCAACGCGAAA
370070 CCAAATCGCA
Statistics
Matches: 46, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
33 34 0.74
34 12 0.26
ACGTcount: A:0.45, C:0.22, G:0.24, T:0.09
Consensus pattern (33 bp):
AATCGCAACGCGAAATGAAAATCGCAACGAGAG
Found at i:370102 original size:19 final size:18
Alignment explanation
Indices: 370075--370192 Score: 80
Period size: 14 Copynumber: 7.1 Consensus size: 18
370065 CGAAACCAAA
*
370075 TCGCATTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
370094 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
*
370108 TCTCGTTGCGATTTTCATT
1 TCGCGTTGCGATTTTCA-T
370127 TCGCGTTGCGA--TTC--
1 TCGCGTTGCGATTTTCAT
* *
370141 TCTCGTTGCGATTGTCAT
1 TCGCGTTGCGATTTTCAT
370159 CTCGCGTTGCGA--TTC--
1 -TCGCGTTGCGATTTTCAT
*
370174 TCTCGTTGCGATTTTCAT
1 TCGCGTTGCGATTTTCAT
370192 T
1 T
370193 TCAACCAAAA
Statistics
Matches: 77, Mismatches: 8, Indels: 29
0.68 0.07 0.25
Matches are distributed among these distances:
14 30 0.39
16 8 0.10
17 8 0.10
18 1 0.01
19 30 0.39
ACGTcount: A:0.10, C:0.25, G:0.21, T:0.44
Consensus pattern (18 bp):
TCGCGTTGCGATTTTCAT
Found at i:370116 original size:14 final size:14
Alignment explanation
Indices: 370097--370186 Score: 81
Period size: 14 Copynumber: 5.7 Consensus size: 14
370087 TTTCATTTCG
370097 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
*
370111 CGTTGCGATTTTCATTTCG
1 CGTTGCGA--TTC---TCT
370130 CGTTGCGATTCTCT
1 CGTTGCGATTCTCT
370144 CGTTGCGATTGTCATCT
1 CGTTGCGA-T-TC-TCT
370161 CGCGTTGCGATTCTCT
1 --CGTTGCGATTCTCT
370177 CGTTGCGATT
1 CGTTGCGATT
370187 TTCATTTCAA
Statistics
Matches: 64, Mismatches: 2, Indels: 20
0.74 0.02 0.23
Matches are distributed among these distances:
14 28 0.44
15 1 0.02
16 8 0.12
17 8 0.12
18 1 0.02
19 18 0.28
ACGTcount: A:0.09, C:0.26, G:0.23, T:0.42
Consensus pattern (14 bp):
CGTTGCGATTCTCT
Found at i:370122 original size:33 final size:33
Alignment explanation
Indices: 370080--370194 Score: 212
Period size: 33 Copynumber: 3.5 Consensus size: 33
370070 CCAAATCGCA
370080 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
370113 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
* *
370146 TTGCGATTGTCATCTCGCGTTGCGATTCTCTCG
1 TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
370179 TTGCGATTTTCATTTC
1 TTGCGATTTTCATTTC
370195 AACCAAAAGA
Statistics
Matches: 78, Mismatches: 4, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
33 78 1.00
ACGTcount: A:0.10, C:0.24, G:0.21, T:0.45
Consensus pattern (33 bp):
TTGCGATTTTCATTTCGCGTTGCGATTCTCTCG
Found at i:372095 original size:92 final size:93
Alignment explanation
Indices: 371846--372219 Score: 677
Period size: 93 Copynumber: 4.1 Consensus size: 93
371836 TAGATTGCTT
*
371846 AGTAAATTTATTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
371911 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
371939 AGTAAATTGTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-T
1 AGTAAATT-TGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGT
372003 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
65 ATTTGTCTTTGTTTTGTCTTTTGGTTGAA
*
372032 AGTAAATTTGTTTGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATA-TA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
372096 TTTGTCTTTGTTTTGTCTTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTC-TTTTGGTTGAA
372125 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAA---TGTATTCTTTAACACTGTGAAATAGTA
1 AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
372187 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
66 TTTGTCTTTGTTTTGTCTTTTGGTTGAA
372215 AGTAA
1 AGTAA
372220 TTTATCCATT
Statistics
Matches: 275, Mismatches: 3, Indels: 9
0.96 0.01 0.03
Matches are distributed among these distances:
90 40 0.15
91 19 0.07
92 72 0.26
93 91 0.33
94 53 0.19
ACGTcount: A:0.22, C:0.12, G:0.19, T:0.47
Consensus pattern (93 bp):
AGTAAATTTGTTCGGTTGCTGCCAATTCTGCTAAACTGTGTATTCTTTAACACTGTGAAATAGTA
TTTGTCTTTGTTTTGTCTTTTGGTTGAA
Found at i:372287 original size:20 final size:18
Alignment explanation
Indices: 372262--372388 Score: 99
Period size: 18 Copynumber: 7.3 Consensus size: 18
372252 TAGTTTACTT
*
372262 TCGCAACACGAAACTTAAAA
1 TCGCAACGCGAAAC--AAAA
*
372282 TCGCAACGCGAAACCAAA
1 TCGCAACGCGAAACAAAA
**
372300 TCGCAACGCGAAATGAAA
1 TCGCAACGCGAAACAAAA
* *
372318 TCGCAA--TG--ACAGAA
1 TCGCAACGCGAAACAAAA
372332 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAA-CAAAA
*
372351 TCGCAA--CG--ACAAGA
1 TCGCAACGCGAAACAAAA
372365 TCGCAACGCGAAACCAAAA
1 TCGCAACGCGAAA-CAAAA
372384 TCGCA
1 TCGCA
372389 TTGCGATTTT
Statistics
Matches: 85, Mismatches: 12, Indels: 21
0.72 0.10 0.18
Matches are distributed among these distances:
14 19 0.22
15 1 0.01
16 4 0.05
17 2 0.02
18 27 0.32
19 19 0.22
20 13 0.15
ACGTcount: A:0.45, C:0.28, G:0.17, T:0.09
Consensus pattern (18 bp):
TCGCAACGCGAAACAAAA
Found at i:372338 original size:32 final size:32
Alignment explanation
Indices: 372296--372388 Score: 134
Period size: 33 Copynumber: 2.9 Consensus size: 32
372286 AACGCGAAAC
** *
372296 CAAATCGCAACGCGAAA-TGAAATCGCAATGA
1 CAAATCGCAACGCGAAACCAAAATCGCAACGA
372327 CAGAATCGCAACGCGAAACCAAAATCGCAACGA
1 CA-AATCGCAACGCGAAACCAAAATCGCAACGA
372360 CAAGATCGCAACGCGAAACCAAAATCGCA
1 CAA-ATCGCAACGCGAAACCAAAATCGCA
372389 TTGCGATTTT
Statistics
Matches: 56, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
31 2 0.04
32 16 0.29
33 38 0.68
ACGTcount: A:0.45, C:0.28, G:0.18, T:0.09
Consensus pattern (32 bp):
CAAATCGCAACGCGAAACCAAAATCGCAACGA
Found at i:372406 original size:19 final size:18
Alignment explanation
Indices: 372384--372501 Score: 108
Period size: 19 Copynumber: 6.8 Consensus size: 18
372374 GAAACCAAAA
372384 TCGCATTGCGATTTTCATT
1 TCGC-TTGCGATTTTCATT
*
372403 TCGCGTGCGA--TTC-TT
1 TCGCTTGCGATTTTCATT
372418 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
*
372435 TCGCATTGCGA--TTC-TG
1 TCGC-TTGCGATTTTCATT
372451 TCG-TTGCGATTTTCATT
1 TCGCTTGCGATTTTCATT
**
372468 TCGCGTTGCGATTTTGGTT
1 TCGC-TTGCGATTTTCATT
372487 TCGCGTTGCGATTTT
1 TCGC-TTGCGATTTT
372502 AAGTTTCGTG
Statistics
Matches: 83, Mismatches: 6, Indels: 20
0.76 0.06 0.18
Matches are distributed among these distances:
14 11 0.13
15 5 0.06
16 13 0.16
17 12 0.14
18 5 0.06
19 37 0.45
ACGTcount: A:0.10, C:0.20, G:0.23, T:0.47
Consensus pattern (18 bp):
TCGCTTGCGATTTTCATT
Found at i:372427 original size:14 final size:14
Alignment explanation
Indices: 372408--372461 Score: 54
Period size: 14 Copynumber: 3.5 Consensus size: 14
372398 TCATTTCGCG
372408 TGCGATTCTTTCGT
1 TGCGATTCTTTCGT
372422 TGCGATTTTCATTTCGCAT
1 TGCGA--TTC-TTTCG--T
*
372441 TGCGATTCTGTCGT
1 TGCGATTCTTTCGT
372455 TGCGATT
1 TGCGATT
372462 TTCATTTCGC
Statistics
Matches: 34, Mismatches: 1, Indels: 10
0.76 0.02 0.22
Matches are distributed among these distances:
14 13 0.38
16 7 0.21
17 8 0.24
19 6 0.18
ACGTcount: A:0.11, C:0.20, G:0.22, T:0.46
Consensus pattern (14 bp):
TGCGATTCTTTCGT
Found at i:372455 original size:33 final size:32
Alignment explanation
Indices: 372389--372480 Score: 148
Period size: 33 Copynumber: 2.8 Consensus size: 32
372379 CAAAATCGCA
* *
372389 TTGCGATTTTCATTTCGCGTGCGATTCTTTCG
1 TTGCGATTTTCATTTCGCTTGCGATTCTGTCG
372421 TTGCGATTTTCATTTCGCATTGCGATTCTGTCG
1 TTGCGATTTTCATTTCGC-TTGCGATTCTGTCG
372454 TTGCGATTTTCATTTCGCGTTGCGATT
1 TTGCGATTTTCATTTCGC-TTGCGATT
372481 TTGGTTTCGC
Statistics
Matches: 56, Mismatches: 3, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
32 18 0.32
33 38 0.68
ACGTcount: A:0.11, C:0.21, G:0.22, T:0.47
Consensus pattern (32 bp):
TTGCGATTTTCATTTCGCTTGCGATTCTGTCG
Found at i:372509 original size:20 final size:19
Alignment explanation
Indices: 372452--372517 Score: 89
Period size: 19 Copynumber: 3.4 Consensus size: 19
372442 GCGATTCTGT
372452 CGTTGCGATTTTCA-TTTCG
1 CGTTGCGATTTT-AGTTTCG
*
372471 CGTTGCGATTTTGGTTTCG
1 CGTTGCGATTTTAGTTTCG
372490 CGTTGCGATTTTAAGTTTCG
1 CGTTGCGATTTT-AGTTTCG
*
372510 TGTTGCGA
1 CGTTGCGA
372518 AAGTAAACTA
Statistics
Matches: 42, Mismatches: 3, Indels: 3
0.88 0.06 0.06
Matches are distributed among these distances:
19 29 0.69
20 13 0.31
ACGTcount: A:0.11, C:0.17, G:0.27, T:0.45
Consensus pattern (19 bp):
CGTTGCGATTTTAGTTTCG
Found at i:374402 original size:13 final size:14
Alignment explanation
Indices: 374386--374420 Score: 54
Period size: 14 Copynumber: 2.6 Consensus size: 14
374376 ATTGTTTAAT
374386 TGATTTGT-AAAGA
1 TGATTTGTAAAAGA
*
374399 TGATTTGTAAAAGT
1 TGATTTGTAAAAGA
374413 TGATTTGT
1 TGATTTGT
374421 GTAATTGATG
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
13 8 0.40
14 12 0.60
ACGTcount: A:0.31, C:0.00, G:0.23, T:0.46
Consensus pattern (14 bp):
TGATTTGTAAAAGA
Found at i:374542 original size:19 final size:18
Alignment explanation
Indices: 374526--374607 Score: 100
Period size: 20 Copynumber: 4.6 Consensus size: 18
374516 AAAAATGACT
374526 ATCGCAATGCGAAATGAA
1 ATCGCAATGCGAAATGAA
*
374544 ATCGCAA--CGAGA-G-A
1 ATCGCAATGCGAAATGAA
374558 ATCGCAATGCGAAATGAAA
1 ATCGCAATGCGAAATG-AA
374577 ATCGCAATGCGGAAATGAAA
1 ATCGCAATGC-GAAATG-AA
374597 ATCGCAATGCG
1 ATCGCAATGCG
374608 TTTATAATTT
Statistics
Matches: 56, Mismatches: 2, Indels: 11
0.81 0.03 0.16
Matches are distributed among these distances:
14 8 0.14
15 1 0.02
16 8 0.14
17 1 0.02
18 7 0.12
19 12 0.21
20 19 0.34
ACGTcount: A:0.43, C:0.18, G:0.24, T:0.15
Consensus pattern (18 bp):
ATCGCAATGCGAAATGAA
Found at i:374660 original size:19 final size:19
Alignment explanation
Indices: 374636--374909 Score: 345
Period size: 19 Copynumber: 15.4 Consensus size: 19
374626 GATTATCTCG
374636 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
374655 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
374674 TTGCGA--TTC-TTTCG--
1 TTGCGATTTTCATTTCGCA
374688 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
374707 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
374726 TTGCGATTTCCATTTCGCA
1 TTGCGATTTTCATTTCGCA
374745 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
374764 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
374783 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
374797 TTGCGATTTTCATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
374816 TTGCGATTTTTATTTCGCA
1 TTGCGATTTTCATTTCGCA
*
374835 TTGCGA--TTC-TCTCG--
1 TTGCGATTTTCATTTCGCA
374849 TTGCGATTTTCATTTCCGCA
1 TTGCGATTTTCATTT-CGCA
374869 TTGCGATTTTCA--T-G--
1 TTGCGATTTTCATTTCGCA
* *
374883 TTGGGATTTTCATTTCGCG
1 TTGCGATTTTCATTTCGCA
374902 TTGCGATT
1 TTGCGATT
374910 GTATTTTCCG
Statistics
Matches: 224, Mismatches: 10, Indels: 42
0.81 0.04 0.15
Matches are distributed among these distances:
14 29 0.13
16 24 0.11
17 20 0.09
18 3 0.01
19 136 0.61
20 12 0.05
ACGTcount: A:0.14, C:0.21, G:0.18, T:0.47
Consensus pattern (19 bp):
TTGCGATTTTCATTTCGCA
Found at i:374676 original size:52 final size:52
Alignment explanation
Indices: 374614--374881 Score: 446
Period size: 52 Copynumber: 5.0 Consensus size: 52
374604 TGCGTTTATA
*
374614 ATTTCGCATTGCGATTATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
374666 ATTTCGCATTGCGATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
374718 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTC
1 ATTTCGCATTGCGA-TT-C-TCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTC
*
374775 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTT
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
374827 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTC
1 ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTC
374880 AT
1 AT
374882 GTTGGGATTT
Statistics
Matches: 205, Mismatches: 5, Indels: 11
0.93 0.02 0.05
Matches are distributed among these distances:
52 130 0.63
53 18 0.09
54 5 0.02
55 6 0.03
56 2 0.01
57 44 0.21
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (52 bp):
ATTTCGCATTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:374765 original size:109 final size:105
Alignment explanation
Indices: 374614--374881 Score: 450
Period size: 109 Copynumber: 2.5 Consensus size: 105
374604 TGCGTTTATA
374614 ATTTCGCATTGCGATT-ATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
1 ATTTCGCATTGCGATTCATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
*
374678 GATTCTTTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
66 GATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
*
374718 ATTTCGCATTGCGATTTCCATTTCGCATTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
1 ATTTCGCATTGCGA-TT-CATCTCG--TTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCA
*
374783 TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTT
62 TTGCGATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
374827 ATTTCGCATTGCGATTC-TCTCGTTGCGATTTTCATTTCCGCATTGCGATTTTCAT
1 ATTTCGCATTGCGATTCATCTCGTTGCGATTTTCATTT-CGCATTGCGATTTTCAT
374882 GTTGGGATTT
Statistics
Matches: 154, Mismatches: 4, Indels: 11
0.91 0.02 0.07
Matches are distributed among these distances:
104 29 0.19
105 19 0.12
106 4 0.03
107 6 0.04
108 2 0.01
109 94 0.61
ACGTcount: A:0.15, C:0.22, G:0.17, T:0.47
Consensus pattern (105 bp):
ATTTCGCATTGCGATTCATCTCGTTGCGATTTTCATTTCGCATTGCGATTTTCATTTCGCATTGC
GATTCTCTCGTTGCGATTTTCATTTCGCATTGCGATTTTC
Found at i:376777 original size:24 final size:24
Alignment explanation
Indices: 376743--376789 Score: 69
Period size: 24 Copynumber: 2.0 Consensus size: 24
376733 CTGAAACATC
376743 ATCAAAATCCGTG-TATTGACCAAT
1 ATCAAAATCCG-GATATTGACCAAT
*
376767 ATCAAAGTCCGGATATTGACCAA
1 ATCAAAATCCGGATATTGACCAA
376790 GACCAAATTT
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
23 1 0.05
24 20 0.95
ACGTcount: A:0.38, C:0.21, G:0.15, T:0.26
Consensus pattern (24 bp):
ATCAAAATCCGGATATTGACCAAT
Found at i:377478 original size:20 final size:20
Alignment explanation
Indices: 377450--377836 Score: 430
Period size: 20 Copynumber: 19.4 Consensus size: 20
377440 AAATTTCAGT
* * * *
377450 GTTGTGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
377470 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
* * *
377490 GTTGCGATTTACAGATTCTC
1 GTTGCGATTTACGGATACGC
*
377510 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
377530 GTTGCGATTTACGGATAC-C
1 GTTGCGATTTACGGATACGC
*
377549 GTTGCGATTTACGGATTA-TC
1 GTTGCGATTTACGGA-TACGC
377569 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
377589 GTTGCGATTTACGGAT-CGC
1 GTTGCGATTTACGGATACGC
*
377608 ATTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
377628 G-TGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
377647 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* * *
377667 GTTGCGATTTTATGTATTA-TC
1 GTTGCGA-TTTACGGA-TACGC
377688 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
*
377708 GTTGCGATATACGGATACGC
1 GTTGCGATTTACGGATACGC
* **
377728 ATTGCGATTTACCCATACGC
1 GTTGCGATTTACGGATACGC
*
377748 GTTGCGATTTACGGATACAC
1 GTTGCGATTTACGGATACGC
377768 GTTGCGATTTACGGATACGC
1 GTTGCGATTTACGGATACGC
* *
377788 GTTGCGATTTATGTG-TTCGC
1 GTTGCGATTTACG-GATACGC
* ** *
377808 GTTGCGATTTTCATATTCGC
1 GTTGCGATTTACGGATACGC
377828 GTTGCGATT
1 GTTGCGATT
377837 ATTGAAAATC
Statistics
Matches: 319, Mismatches: 34, Indels: 28
0.84 0.09 0.07
Matches are distributed among these distances:
19 59 0.18
20 241 0.76
21 17 0.05
22 2 0.01
ACGTcount: A:0.20, C:0.19, G:0.26, T:0.36
Consensus pattern (20 bp):
GTTGCGATTTACGGATACGC
Found at i:400338 original size:20 final size:20
Alignment explanation
Indices: 400297--400339 Score: 59
Period size: 20 Copynumber: 2.1 Consensus size: 20
400287 AAGTTAGTAG
* *
400297 TATCGATACCCAAAGATTAC
1 TATCAATACCCAAAGATCAC
*
400317 TATCAATACCCAAAGGTCAC
1 TATCAATACCCAAAGATCAC
400337 TAT
1 TAT
400340 TGATATTGAG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.26, G:0.09, T:0.26
Consensus pattern (20 bp):
TATCAATACCCAAAGATCAC
Found at i:412426 original size:233 final size:233
Alignment explanation
Indices: 411631--412798 Score: 1557
Period size: 232 Copynumber: 5.0 Consensus size: 233
411621 AATCTTTCAA
* * * * *
411631 GCCATTCATAAGACCTTCGGGCATGATGTTTTCACATGTCTCTTGAAAAATGAGAAATA-TTTCT
1 GCCATCCACAAGACCTTCGGGCAGGATGTTTTCACATGTTTTTTGAAAAATGAGAAA-AGTTTCT
* * * * *
411695 CATTTAAATCTGCAAATTGAATTTTTTTAAAAGTAAGAAAAGTTTCTTACCTACTAAACTACTTC
65 CATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTC
* * * * *
411760 CAAAATTGGTAAATTCTTTCAGGCCATCAGTAAGTCTTTCGAGCGTGATGCTTAAATCCTTCGGG
130 CAAAATTGGT-AAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGG
* * *
411825 TCATCTATAATTCTTTCGAGCAAGATGGTAAGTCCTTCGG
194 TCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGG
* * *
411865 GCCATCCACAAGACCTTCGGGCAGGATGTTTTCAAATGTTTTTCGAAAAATG-GGAAAGTTTTCT
1 GCCATCCACAAGACCTTCGGGCAGGATGTTTTCACATGTTTTTTGAAAAATGAGAAAAG-TTTCT
* * * *
411929 CATTTAAATCTTAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACATACTAAACAATTTC
65 CATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTC
* * ** *
411994 CAAAAGTT-GCAAGTCATTCGGGCTATCAAAAAGTCTTTCGAGCATGATGCTTAAATCATTCGGG
130 CAAAA-TTGGTAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGG
*
412058 TCAACTGT-AGTCTTTCGAGCAAGATGATAAGTCCTTCGG
194 TCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGG
** * * * *
412097 GCCATCCACAAGATTTTTGGGTAGGATATTTT-ACATGTTTTTCT--AAAATGAGAAAAGTTTTT
1 GCCATCCACAAGACCTTCGGGCAGGATGTTTTCACATGTTTTT-TGAAAAATGAGAAAAGTTTCT
* * **
412159 CATTTAAATCTAAAAATTGAAATTTTTTAAAAGTAAGAAAAACTTCTTACCTAGTAAACTATTTC
65 CATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTC
* * * * * *
412224 CAAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTGTTTCAAGCATTATGGTTAAATCCTTTGGGT
130 CAAAATTGGTAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGT
* * *
412289 CATCTGTAAGTCTTTTGAGCAGGATGATAAGTCCTTTGG
195 CATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGG
* * *
412328 ACCATCCACAAGACCTTAGGAG-AGGATGTTTTCACATGTTTTTTGAAAAATGAGAAACGTTTCT
1 GCCATCCACAAGACCTTCGG-GCAGGATGTTTTCACATGTTTTTTGAAAAATGAGAAAAGTTTCT
412392 CATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTC
65 CATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTC
* * * * *
412457 CAGAATTGGTAAGTCCTTTGAGCTATCAGTAAGTCTTTCGATCATGATTCTTAAATCCTTCGGGT
130 CAAAATTGGTAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGT
*
412522 TATC-GTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGG
195 CATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGG
* * * *
412560 GCCATCCACAAGACCTTCGGGCAGGATGTTTTCATATATTTTTAGAAAAATGAGAAAATTTTCTC
1 GCCATCCACAAGACCTTCGGGCAGGATGTTTTCACATGTTTTTTGAAAAATGAGAAAAGTTTCTC
* * *
412625 ATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAACGTTTCTTACCTAGTAAACTGTTTCC
66 ATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCC
* ***
412690 AAAATTGGTAAG-CCTTTCGGGCTATCAGTAAGCCTTTCGAGCATGATGCTTAAATCCTTAAAGT
131 AAAATTGGTAAGTCC-TTCGGGCTATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGT
412754 CAAT-TGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGG
195 C-ATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGG
412793 GCCATC
1 GCCATC
412799 AGTAAGTCTT
Statistics
Matches: 814, Mismatches: 105, Indels: 31
0.86 0.11 0.03
Matches are distributed among these distances:
229 2 0.00
230 125 0.15
231 71 0.09
232 269 0.33
233 231 0.28
234 114 0.14
235 2 0.00
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (233 bp):
GCCATCCACAAGACCTTCGGGCAGGATGTTTTCACATGTTTTTTGAAAAATGAGAAAAGTTTCTC
ATTTAAATCTGAAAATTGAAATTTTTGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCC
AAAATTGGTAAGTCCTTCGGGCTATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTC
ATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGG
Found at i:412543 original size:463 final size:464
Alignment explanation
Indices: 411631--412798 Score: 1553
Period size: 463 Copynumber: 2.5 Consensus size: 464
411621 AATCTTTCAA
* * * * * * * *
411631 GCCATTCATAAGACCTTCGGGCATGATGTTTTCACATGTCTCTT-GAAAAATGAGAAATATTTCT
1 GCCATCCACAAGACCTTCGGGCAGGATATTTTCACATAT-TTTTACAAAAATGAGAAA-ATTTTT
* * * *
411695 CATTTAAATCTGCAAATTGAATTTTTTTAAAAGTAAGAAAAGTTTCTTACCTACTAAACTACTTC
64 CATTTAAATCTGAAAATTGAAATTTTTTAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTC
* * * * *
411760 CAAAATTGGTAAATTCTTTCAGGCCATCAGTAAGTCTTTCGAGCGTGATGCTTAAATCCTTCGGG
129 CAAAATTGGT-AAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTAGGG
* * * *
411825 TCATCTATAATTCTTTCGAGCAAGATGGTAAGTCCTTCGGGCCATCCACAAGACCTTCGGGCAGG
193 TCATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCACAAGACCTTAGGGCAGG
* *
411890 ATGTTTTCAAATGTTTTTCGAAAAATGGGAAAGTTTTCTCATTTAAATCTTAAAATTGAAATTTT
258 ATGTTTTCAAATGTTTTTCGAAAAATGAGAAAGTTTTCTCATTTAAATCTGAAAATTGAAATTTT
*
411955 TGAAAAGTAAGAAAAGTTTCTTACATACTAAACAATTTCCAAAAGTTGCAAGTCATTCGGGCTAT
323 TGAAAAGTAAGAAAAGTTTCTTACATACTAAACAATTTCCAAAAGTTGCAAGTCATTCGAGCTAT
412020 CAAAAAGTCTTTCGAGCATGATGCTTAAATCATTCGGGTCAACTGTAGTCTTTCGAGCAAGATGA
388 CAAAAAGTCTTTCGAGCATGATGCTTAAATCATTCGGGTCAACTGTAGTCTTTCGAGCAAGATGA
412085 TAAGTCCTTCGG
453 TAAGTCCTTCGG
** * * * *
412097 GCCATCCACAAGATTTTTGGGTAGGATATTTT-ACATGTTTTT-CTAAAATGAGAAAAGTTTTTC
1 GCCATCCACAAGACCTTCGGGCAGGATATTTTCACATATTTTTACAAAAATGAGAAAA-TTTTTC
* **
412160 ATTTAAATCTAAAAATTGAAATTTTTTAAAAGTAAGAAAAACTTCTTACCTAGTAAACTATTTCC
65 ATTTAAATCTGAAAATTGAAATTTTTTAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCC
* * * * *
412225 AAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTGTTTCAAGCATTATGGTTAAATCCTTTGGGTC
130 AAAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGTC
* * * *
412290 ATCTGTAAGTCTTTTGAGCAGGATGATAAGTCCTTTGGACCATCCACAAGACCTTAGGAG-AGGA
195 ATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCACAAGACCTTAGG-GCAGGA
* *
412354 TGTTTTCACATGTTTTTTGAAAAATGAGAAACG-TTTCTCATTTAAATCTGAAAATTGAAATTTT
259 TGTTTTCAAATGTTTTTCGAAAAATGAGAAA-GTTTTCTCATTTAAATCTGAAAATTGAAATTTT
* * * * * * *
412418 TGAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCAGAA-TTGGTAAGTCCTTTGAGCTA
323 TGAAAAGTAAGAAAAGTTTCTTACATACTAAACAATTTCCAAAAGTT-GCAAGTCATTCGAGCTA
** * * * * *
412482 TCAGTAAGTCTTTCGATCATGATTCTTAAATCCTTCGGGTTATC-GTAAGTCTTTCGAGCAAGAT
387 TCAAAAAGTCTTTCGAGCATGATGCTTAAATCATTCGGGTCAACTGT-AGTCTTTCGAGCAAGAT
412546 GATAAGTCCTTCGG
451 GATAAGTCCTTCGG
* * *
412560 GCCATCCACAAGACCTTCGGGCAGGATGTTTTCATATATTTTTAGAAAAATGAGAAAATTTTCTC
1 GCCATCCACAAGACCTTCGGGCAGGATATTTTCACATATTTTTACAAAAATGAGAAAATTTT-TC
* * * *
412625 ATTTAAATATGAAAATTGAAATTTTTGAAAAGTAAGAAACGTTTCTTACCTAGTAAACTGTTTCC
65 ATTTAAATCTGAAAATTGAAATTTTTTAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCC
* * **
412690 AAAATTGGTAAG-CCTTTCGGGCTATCAGTAAGCCTTTCGAGCATGATGCTTAAATCCTTAAAGT
130 AAAATTGGTAAGTCC-TTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGT
412754 CAAT-TGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATC
194 C-ATCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATC
412799 AGTAAGTCTT
Statistics
Matches: 608, Mismatches: 84, Indels: 21
0.85 0.12 0.03
Matches are distributed among these distances:
462 4 0.01
463 308 0.51
464 102 0.17
465 168 0.28
466 26 0.04
ACGTcount: A:0.32, C:0.16, G:0.17, T:0.34
Consensus pattern (464 bp):
GCCATCCACAAGACCTTCGGGCAGGATATTTTCACATATTTTTACAAAAATGAGAAAATTTTTCA
TTTAAATCTGAAAATTGAAATTTTTTAAAAGTAAGAAAAGTTTCTTACCTAGTAAACTATTTCCA
AAATTGGTAAGTCCTTCGGGCCATCAGTAAGTCTTTCGAGCATGATGCTTAAATCCTTAGGGTCA
TCTGTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCCACAAGACCTTAGGGCAGGATG
TTTTCAAATGTTTTTCGAAAAATGAGAAAGTTTTCTCATTTAAATCTGAAAATTGAAATTTTTGA
AAAGTAAGAAAAGTTTCTTACATACTAAACAATTTCCAAAAGTTGCAAGTCATTCGAGCTATCAA
AAAGTCTTTCGAGCATGATGCTTAAATCATTCGGGTCAACTGTAGTCTTTCGAGCAAGATGATAA
GTCCTTCGG
Found at i:412804 original size:41 final size:41
Alignment explanation
Indices: 412759--412874 Score: 142
Period size: 42 Copynumber: 2.8 Consensus size: 41
412749 AAAGTCAATT
*
412759 GTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCATCA
1 GTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAACA
* * * * * *
412800 GTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCAACT
1 GTAAGTCTTTCGAGCAAGATG-ATAAGTCCTTCGGGCCAACA
* *
412842 GTAAGTCTATCAAGCAAGATGATAAGTCCTTCG
1 GTAAGTCTTTCGAGCAAGATGATAAGTCCTTCG
412875 ATCCATCCAC
Statistics
Matches: 61, Mismatches: 13, Indels: 2
0.80 0.17 0.03
Matches are distributed among these distances:
41 29 0.48
42 32 0.52
ACGTcount: A:0.28, C:0.20, G:0.22, T:0.30
Consensus pattern (41 bp):
GTAAGTCTTTCGAGCAAGATGATAAGTCCTTCGGGCCAACA
Found at i:412845 original size:83 final size:83
Alignment explanation
Indices: 412705--412874 Score: 259
Period size: 83 Copynumber: 2.0 Consensus size: 83
412695 TGGTAAGCCT
* * *
412705 TTCGGGCTATCAGTAAGCCTTTCGAGCATGATGCTTAAATCCTTAAAGTCAATTGTAAGTCTTTC
1 TTCGGGCCATCAGTAAGCCTTTCGAGCATGATGCTTAAATCCTTAAAGTCAACTGTAAGTCTATC
*
412770 GAGCAAGATGATAAGTCC
66 AAGCAAGATGATAAGTCC
* * ***
412788 TTCGGGCCATCAGTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCAACTGTAAGTCTATC
1 TTCGGGCCATCAGTAAGCCTTTCGAGCATGATGCTTAAATCCTTAAAGTCAACTGTAAGTCTATC
412853 AAGCAAGATGATAAGTCC
66 AAGCAAGATGATAAGTCC
412871 TTCG
1 TTCG
412875 ATCCATCCAC
Statistics
Matches: 78, Mismatches: 9, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
83 78 1.00
ACGTcount: A:0.28, C:0.20, G:0.21, T:0.31
Consensus pattern (83 bp):
TTCGGGCCATCAGTAAGCCTTTCGAGCATGATGCTTAAATCCTTAAAGTCAACTGTAAGTCTATC
AAGCAAGATGATAAGTCC
Found at i:412846 original size:42 final size:42
Alignment explanation
Indices: 412717--412849 Score: 151
Period size: 42 Copynumber: 3.2 Consensus size: 42
412707 CGGGCTATCA
* *** *
412717 GTAAGCCTTTCGAGCATGATGCTTAAATCCTTAAAGTCAATT
1 GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAACT
* * * * * *
412759 GTAAGTCTTTCGAGCAAGATG-ATAAGTCCTTCGGGCCATCA
1 GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAACT
*
412800 GTAAGTCTTTTGAGCATGATGCTTAAATCCTTCGGGTCAACT
1 GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAACT
412842 GTAAGTCT
1 GTAAGTCT
412850 ATCAAGCAAG
Statistics
Matches: 72, Mismatches: 18, Indels: 2
0.78 0.20 0.02
Matches are distributed among these distances:
41 30 0.42
42 42 0.58
ACGTcount: A:0.27, C:0.20, G:0.21, T:0.32
Consensus pattern (42 bp):
GTAAGTCTTTCGAGCATGATGCTTAAATCCTTCGGGTCAACT
Done.