Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001675.1 Hibiscus syriacus cultivar Beakdansim tig00003350_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: 63216
ACGTcount: A:0.33, C:0.16, G:0.17, T:0.33
Found at i:1027 original size:16 final size:16
Alignment explanation
Indices: 1001--1043 Score: 59
Period size: 16 Copynumber: 2.7 Consensus size: 16
991 CCATTAACGT
* *
1001 TAACTGTTGACCGGTC
1 TAACCGTTGACCAGTC
*
1017 TGACCGTTGACCAGTC
1 TAACCGTTGACCAGTC
1033 TAACCGTTGAC
1 TAACCGTTGAC
1044 TTTGACCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.21, C:0.28, G:0.23, T:0.28
Consensus pattern (16 bp):
TAACCGTTGACCAGTC
Found at i:1632 original size:27 final size:27
Alignment explanation
Indices: 1601--1671 Score: 90
Period size: 27 Copynumber: 2.6 Consensus size: 27
1591 CTTGGATAAG
* * *
1601 AAATTATGAAAATA-CTTTGGTTAGGTA
1 AAATTATGAAAATACCCTT-ATGAGGTA
1628 AAATTATGAAAATACCCTTATGAGGTA
1 AAATTATGAAAATACCCTTATGAGGTA
*
1655 AAATTATGAAAACACCC
1 AAATTATGAAAATACCC
1672 CTGAGTTATA
Statistics
Matches: 39, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
27 36 0.92
28 3 0.08
ACGTcount: A:0.45, C:0.11, G:0.14, T:0.30
Consensus pattern (27 bp):
AAATTATGAAAATACCCTTATGAGGTA
Found at i:3203 original size:31 final size:31
Alignment explanation
Indices: 3164--3238 Score: 96
Period size: 31 Copynumber: 2.4 Consensus size: 31
3154 CTAAGCGACC
* *
3164 CTTAGGTAGGCTCTGCGACCCTGAGATCTTT
1 CTTAGGTAGGCCCTACGACCCTGAGATCTTT
* * * *
3195 CTTGGGTAGGCCCTACGGCCTTGAGATTTTT
1 CTTAGGTAGGCCCTACGACCCTGAGATCTTT
3226 CTTAGGTAGGCCC
1 CTTAGGTAGGCCC
3239 CGTGGCCTCG
Statistics
Matches: 37, Mismatches: 7, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
31 37 1.00
ACGTcount: A:0.15, C:0.25, G:0.28, T:0.32
Consensus pattern (31 bp):
CTTAGGTAGGCCCTACGACCCTGAGATCTTT
Found at i:3246 original size:31 final size:31
Alignment explanation
Indices: 3185--3267 Score: 94
Period size: 31 Copynumber: 2.7 Consensus size: 31
3175 TCTGCGACCC
*
3185 TGAGATCTTTCTTGGGTAGGCCCTACGGCCT
1 TGAGATCTTTCTTGGGTAGGCCCCACGGCCT
* * **
3216 TGAGATTTTTCTTAGGTAGGCCCCGTGGCCT
1 TGAGATCTTTCTTGGGTAGGCCCCACGGCCT
* **
3247 CGAGAAGTTTCTTGGGTAGGC
1 TGAGATCTTTCTTGGGTAGGC
3268 TCTCAGGCCC
Statistics
Matches: 43, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
31 43 1.00
ACGTcount: A:0.14, C:0.22, G:0.31, T:0.33
Consensus pattern (31 bp):
TGAGATCTTTCTTGGGTAGGCCCCACGGCCT
Found at i:5652 original size:46 final size:46
Alignment explanation
Indices: 5585--5940 Score: 525
Period size: 46 Copynumber: 7.7 Consensus size: 46
5575 GGATACTTTA
* *
5585 ATTATCGGCATGAAAGGATGCCATAAATGAATATGCATAACGGTGC
1 ATTATAGGCATGAAAGGATGCCATAAATGAAAATGCATAACGGTGC
*
5631 ATTATAGGCATAAAAGGATGCCATAAATGAAAATGCATAACGGTGC
1 ATTATAGGCATGAAAGGATGCCATAAATGAAAATGCATAACGGTGC
*
5677 ATTATAGGCAT-AACAGGATGCCATAAATGAAAATGCATAACGGTAC
1 ATTATAGGCATGAA-AGGATGCCATAAATGAAAATGCATAACGGTGC
* * *
5723 ATTATCGGTATGAAAGGATGCCATAAATGAAAATGCATAACGGTAC
1 ATTATAGGCATGAAAGGATGCCATAAATGAAAATGCATAACGGTGC
* * **
5769 ATTATCGGCATGAAAGGATGCCATAAATAAAAATGTGTAACGGTGC
1 ATTATAGGCATGAAAGGATGCCATAAATGAAAATGCATAACGGTGC
* ** *
5815 ATTATAGGCATGAAATGATGCCATAAACAAAAATACATAACGGTGC
1 ATTATAGGCATGAAAGGATGCCATAAATGAAAATGCATAACGGTGC
* * *
5861 ATTATCGGCATGAAAGGATGCCATAAATGAAAAAGCATAATGGTGC
1 ATTATAGGCATGAAAGGATGCCATAAATGAAAATGCATAACGGTGC
*
5907 ATTTTAGGCATGAAAGGATGCCATAAATGAAAAT
1 ATTATAGGCATGAAAGGATGCCATAAATGAAAAT
5941 AAAGAATAAT
Statistics
Matches: 281, Mismatches: 27, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
45 2 0.01
46 277 0.99
47 2 0.01
ACGTcount: A:0.42, C:0.13, G:0.22, T:0.23
Consensus pattern (46 bp):
ATTATAGGCATGAAAGGATGCCATAAATGAAAATGCATAACGGTGC
Found at i:9848 original size:64 final size:64
Alignment explanation
Indices: 9742--9867 Score: 243
Period size: 64 Copynumber: 2.0 Consensus size: 64
9732 GTCAAATAGC
*
9742 CGAATATCATTACAACTTATTAGCGAGGCTTATCAGGTGAGTACATTTATTGTATTTATATGGT
1 CGAACATCATTACAACTTATTAGCGAGGCTTATCAGGTGAGTACATTTATTGTATTTATATGGT
9806 CGAACATCATTACAACTTATTAGCGAGGCTTATCAGGTGAGTACATTTATTGTATTTATATG
1 CGAACATCATTACAACTTATTAGCGAGGCTTATCAGGTGAGTACATTTATTGTATTTATATG
9868 AGATGAGTAA
Statistics
Matches: 61, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
64 61 1.00
ACGTcount: A:0.30, C:0.13, G:0.18, T:0.38
Consensus pattern (64 bp):
CGAACATCATTACAACTTATTAGCGAGGCTTATCAGGTGAGTACATTTATTGTATTTATATGGT
Found at i:10078 original size:46 final size:46
Alignment explanation
Indices: 10008--10157 Score: 203
Period size: 46 Copynumber: 3.3 Consensus size: 46
9998 AAATGAATAA
*
10008 ATAAATGAAAATGCATATTGGTGCATTATCAGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAATGGTGCATTATCAGCATGAAAGGATGCC
** * ** *
10054 ATAAATGAAAATGCATAACAGTGCATTAT-AGGCAAGAAAATATTCC
1 ATAAATGAAAATGCATAATGGTGCATTATCA-GCATGAAAGGATGCC
* *
10100 ATAAATGAAAATCCATAATGGTGCATTATCGGCATGAAAGGATGCC
1 ATAAATGAAAATGCATAATGGTGCATTATCAGCATGAAAGGATGCC
10146 ATAAATGAAAAT
1 ATAAATGAAAAT
10158 AAAGAATAAT
Statistics
Matches: 87, Mismatches: 15, Indels: 4
0.82 0.14 0.04
Matches are distributed among these distances:
45 1 0.01
46 86 0.99
ACGTcount: A:0.44, C:0.13, G:0.19, T:0.25
Consensus pattern (46 bp):
ATAAATGAAAATGCATAATGGTGCATTATCAGCATGAAAGGATGCC
Found at i:14522 original size:37 final size:37
Alignment explanation
Indices: 14477--14818 Score: 178
Period size: 37 Copynumber: 9.0 Consensus size: 37
14467 TTACTGATGA
14477 ATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTG
1 ATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTG
*
14514 ATTTGCTTCACTACT-TTTCGGTGAAGGTTTAAGA-TG
1 ATTTGCTTCACTACTCTTT-GGTGAAGGCTTAAGATTG
**** **** * * * *
14550 GCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGA-TG
1 ATTTGCTTCAC-TACTC-T-TTGGT--GAAGGCTTA-AGATTG
** *
14592 AATTTGCTTCACTACTCTTCCGTGAAGGCTTATGA-TG
1 -ATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTG
* * *
14629 AATTTGCTTCACTAATCTTCGGTGAAGGCTTTAGATTG
1 -ATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTG
*
14667 ATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATAG
1 ATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTG
* * * * * * *
14704 CTCGGATGACTT-AAT-CATCATCCTCG-GAAGGCTTACTGATGG
1 AT---TTG-CTTCACTAC-TC-T-TTGGTGAAGGCTTA-AGATTG
** * *
14746 ATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATGG
1 ATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTG
*
14783 ATTTGCTTCACTACTCTTCGGTGAAGGCATT-AGATT
1 ATTTGCTTCACTACTCTTTGGTGAAGGC-TTAAGATT
14819 TCCCTAAGGA
Statistics
Matches: 233, Mismatches: 50, Indels: 44
0.71 0.15 0.13
Matches are distributed among these distances:
36 8 0.03
37 140 0.60
38 26 0.11
39 10 0.04
40 9 0.04
41 22 0.09
42 15 0.06
43 3 0.01
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (37 bp):
ATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTG
Found at i:14570 original size:116 final size:117
Alignment explanation
Indices: 14360--14661 Score: 466
Period size: 116 Copynumber: 2.6 Consensus size: 117
14350 CTCAAGATCG
* * * *
14360 ATTTTCTTCAGTACTCTTCGGTGAAGGCTTAAGATTGAATTTACTTCACTACTCTTT-GATGAAG
1 ATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGAATTTGCTTCACTACT-TTTCGGTGAAG
* *
14424 GCTTAAGATGGCCCGGAGGACTTATTCATCATGCTCGGAAGGCTTACTGATGA
65 GTTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGA
*
14477 ATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTG-ATTTGCTTCACTACTTTTCGGTGAAGG
1 ATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGAATTTGCTTCACTACTTTTCGGTGAAGG
14541 TTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGA
66 TTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGA
* * * *
14593 ATTTGCTTCACTACTCTTCCGTGAAGGCTTATGA-TGAATTTGCTTCACTAATCTTCGGTGAAGG
1 ATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGAATTTGCTTCACTACTTTTCGGTGAAGG
14657 CTTTA
66 -TTTA
14662 GATTGATTTG
Statistics
Matches: 170, Mismatches: 12, Indels: 6
0.90 0.06 0.03
Matches are distributed among these distances:
115 5 0.03
116 127 0.75
117 38 0.22
ACGTcount: A:0.24, C:0.19, G:0.22, T:0.35
Consensus pattern (117 bp):
ATTTGCTTCACTACTCTTCGGTGAAGGCTTAAGATTGAATTTGCTTCACTACTTTTCGGTGAAGG
TTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGA
Found at i:14606 original size:79 final size:78
Alignment explanation
Indices: 14499--14782 Score: 278
Period size: 79 Copynumber: 3.7 Consensus size: 78
14489 ACTCTTTGGT
* * * * * *
14499 GAAGGCTTA-AGATTGATTTGCTTCACTACTTTTCGGTGAAGGTTTAAGATGGCCCGGAGGACTT
1 GAAGGCTTACTGA-TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGGCTCGGATGACTT
14563 AATCATCATGCTCG
65 AATCATCATGCTCG
* ** * ** *
14577 GAAGGCTTACTGATGAATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATGAATTTGCTTCAC-
1 GAAGGCTTACTGATG-ATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATG-GCTCGGATGACT
* *
14641 TAATCTTC--GGT--
64 TAATCATCATGCTCG
** *
14652 GAAGGCTT--TAGATTGATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATAGCTCGGATGACT
1 GAAGGCTTACT-GA-TGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGGCTCGGATGACT
*
14715 TAATCATCATCCTCG
64 TAATCATCATGCTCG
*
14730 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGGCTTATGATGG
1 GAAGGCTTACTGAT-GATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGG
14783 ATTTGCTTCA
Statistics
Matches: 161, Mismatches: 32, Indels: 25
0.74 0.15 0.11
Matches are distributed among these distances:
73 6 0.04
74 41 0.25
75 10 0.06
76 1 0.01
77 2 0.01
78 20 0.12
79 77 0.48
80 4 0.02
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (78 bp):
GAAGGCTTACTGATGATTTGCTTCACTACTCTTCCGTGAAGGCTTAAGATGGCTCGGATGACTTA
ATCATCATGCTCG
Found at i:14667 original size:153 final size:153
Alignment explanation
Indices: 14461--14818 Score: 592
Period size: 153 Copynumber: 2.3 Consensus size: 153
14451 ATCATGCTCG
* *
14461 GAAGGCTTACTGATGAATTTGCTTCACTACTCTTTGGTGAAGGCTTAAGATTGATTTGCTTCACT
1 GAAGGCTTA-TGATGAATTTGCTTCACTACTCTTCGGTGAAGGCTTTAGATTGATTTGCTTCACT
* * *
14526 ACT-TTTCGGTGAAGGTTTAAGATGGCCCGGAGGACTTAATCATCATGCTCGGAAGGCTTACTGA
65 ACTCTTT-GGTGAAGGCTTAAGATAGCCCGGAGGACTTAATCATCATCCTCGGAAGGCTTACTGA
14590 TGAATTTGCTTCACTACTCTTCCGT
129 TGAATTTGCTTCACTACTCTTCCGT
*
14615 GAAGGCTTATGATGAATTTGCTTCACTAATCTTCGGTGAAGGCTTTAGATTGATTTGCTTCACTA
1 GAAGGCTTATGATGAATTTGCTTCACTACTCTTCGGTGAAGGCTTTAGATTGATTTGCTTCACTA
* *
14680 CTCTTTGGTGAAGGCTTAAGATAGCTCGGATGACTTAATCATCATCCTCGGAAGGCTTACTGATG
66 CTCTTTGGTGAAGGCTTAAGATAGCCCGGAGGACTTAATCATCATCCTCGGAAGGCTTACTGATG
*
14745 GATTTGCTTCACTACTCTTCCGT
131 AATTTGCTTCACTACTCTTCCGT
* *
14768 GAAGGCTTATGATGGATTTGCTTCACTACTCTTCGGTGAAGGCATTAGATT
1 GAAGGCTTATGATGAATTTGCTTCACTACTCTTCGGTGAAGGCTTTAGATT
14819 TCCCTAAGGA
Statistics
Matches: 191, Mismatches: 12, Indels: 3
0.93 0.06 0.01
Matches are distributed among these distances:
153 179 0.94
154 12 0.06
ACGTcount: A:0.23, C:0.19, G:0.23, T:0.35
Consensus pattern (153 bp):
GAAGGCTTATGATGAATTTGCTTCACTACTCTTCGGTGAAGGCTTTAGATTGATTTGCTTCACTA
CTCTTTGGTGAAGGCTTAAGATAGCCCGGAGGACTTAATCATCATCCTCGGAAGGCTTACTGATG
AATTTGCTTCACTACTCTTCCGT
Found at i:14744 original size:116 final size:116
Alignment explanation
Indices: 14615--14904 Score: 388
Period size: 116 Copynumber: 2.5 Consensus size: 116
14605 ACTCTTCCGT
* * *
14615 GAAGGCTTA-TGATGAATTTGCTTCACTAATCTTCGGTGAAGGCTTTAGATTGATTTGCTTCACT
1 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTTAGATTGATTTGCTTCACT
* * * *
14679 ACTCTTTGGTGAAGGC-TTAAGATAGCTCGGATGACTTAATCATCATCCTCG
66 ACTCTTCGGTGAAGGCATT-AGATAGCCCGAAGGACTTAATCATCATCCTCG
* *
14730 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCCGTGAAGGC-TTATGATGGATTTGCTTCAC
1 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTTA-GATTGATTTGCTTCAC
** * *
14794 TACTCTTCGGTGAAGGCATTAGATTTCCCTAAGGACTTAATCATCATGCTCG
65 TACTCTTCGGTGAAGGCATTAGATAGCCCGAAGGACTTAATCATCATCCTCG
* * * *
14846 GAAGGCTTACTGATGGATTTTCTTTACTACTCTTCAGTGAAGGCTTAAGATTGACTTGC
1 GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTTAGATTGATTTGC
14905 CCTAATCTCA
Statistics
Matches: 153, Mismatches: 18, Indels: 7
0.86 0.10 0.04
Matches are distributed among these distances:
115 12 0.08
116 137 0.90
117 4 0.03
ACGTcount: A:0.23, C:0.19, G:0.22, T:0.36
Consensus pattern (116 bp):
GAAGGCTTACTGATGGATTTGCTTCACTACTCTTCAGTGAAGGCTTTAGATTGATTTGCTTCACT
ACTCTTCGGTGAAGGCATTAGATAGCCCGAAGGACTTAATCATCATCCTCG
Found at i:14888 original size:269 final size:270
Alignment explanation
Indices: 14360--14892 Score: 809
Period size: 269 Copynumber: 2.0 Consensus size: 270
14350 CTCAAGATCG
* * *
14360 ATTTTCTTCAGTACTCTTCGGTGAAGGCTTAAGATTGAATTTACTTCACTACTCTTTGATGAAGG
1 ATTTGCTTCACTAATCTTCGGTGAAGGCTTAAGATTGAATTTACTTCACTACTCTTTGATGAAGG
* * *
14425 CTTAAGATGGCCCGGAGGACTTATTCATCATGCTCGGAAGGCTTACTGATGAATTTGCTTCACTA
66 CTTAAGATAGCCCGGAGGACTTAATCATCATCCTCGGAAGGCTTACTGATGAATTTGCTTCACTA
** * * *
14490 CTCTTTGGTGAAGGCTTAAGATTGATTTGCTTCACTACTTTTCGGTGAAGGTTTAAGATGGCCCG
131 CTCTTCCGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTGAAGGATTAAGATGGCCCG
* *
14555 GAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGAATTTGCTTCACTACTCTTCCGTGAAGG
196 AAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGAATTTGCTTCACTACTCTTCAGTGAAGG
14620 CTTATGATGA
261 CTTATGATGA
* * *
14630 ATTTGCTTCACTAATCTTCGGTGAAGGCTTTAGATTG-ATTTGCTTCACTACTCTTTGGTGAAGG
1 ATTTGCTTCACTAATCTTCGGTGAAGGCTTAAGATTGAATTTACTTCACTACTCTTTGATGAAGG
* * *
14694 CTTAAGATAGCTCGGATGACTTAATCATCATCCTCGGAAGGCTTACTGATGGATTTGCTTCACTA
66 CTTAAGATAGCCCGGAGGACTTAATCATCATCCTCGGAAGGCTTACTGATGAATTTGCTTCACTA
* **
14759 CTCTTCCGTGAAGGCTTATGATGGATTTGCTTCACTACTCTTCGGTGAAGGCATT-AGATTTCCC
131 CTCTTCCGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTGAAGG-ATTAAGATGGCCC
* * * *
14823 TAAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGGATTTTCTTTACTACTCTTCAGTGAAG
195 GAAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGAATTTGCTTCACTACTCTTCAGTGAAG
14888 GCTTA
260 GCTTA
14893 AGATTGACTT
Statistics
Matches: 236, Mismatches: 26, Indels: 3
0.89 0.10 0.01
Matches are distributed among these distances:
269 201 0.85
270 35 0.15
ACGTcount: A:0.23, C:0.20, G:0.22, T:0.35
Consensus pattern (270 bp):
ATTTGCTTCACTAATCTTCGGTGAAGGCTTAAGATTGAATTTACTTCACTACTCTTTGATGAAGG
CTTAAGATAGCCCGGAGGACTTAATCATCATCCTCGGAAGGCTTACTGATGAATTTGCTTCACTA
CTCTTCCGTGAAGGCTTAAGATGGATTTGCTTCACTACTCTTCGGTGAAGGATTAAGATGGCCCG
AAGGACTTAATCATCATGCTCGGAAGGCTTACTGATGAATTTGCTTCACTACTCTTCAGTGAAGG
CTTATGATGA
Found at i:16252 original size:119 final size:119
Alignment explanation
Indices: 16063--16284 Score: 363
Period size: 119 Copynumber: 1.9 Consensus size: 119
16053 TGGTATGGGT
* * * * *
16063 CTTCAAAATGCCCCAACGCCTAAAATTGTAAGGTTCATTCTCAATGCTTTCTTAGTTTGAATCTT
1 CTTCAAAATGCCCCAACACCTAAAATTGTAAGGCTCATTCTCAATGCCTCCTTAGTCTGAATCTT
* *
16128 GTCATCTCAACATGATGTGGGTTCAGTCATTCCCCAATATTATCTTATACGGGC
66 ATCATCTCAACATGATGTGGGTTCAGTCATGCCCCAATATTATCTTATACGGGC
* *
16182 CTTCAAAATGCCCCAACACCTCAAATTGTAAGGCTCATTCTCAATGCCTCCTTGGTCTGAATCTT
1 CTTCAAAATGCCCCAACACCTAAAATTGTAAGGCTCATTCTCAATGCCTCCTTAGTCTGAATCTT
16247 ATCATCTCAACATGATGTGGGTTCAGTCATGCCCCAAT
66 ATCATCTCAACATGATGTGGGTTCAGTCATGCCCCAAT
16285 GTGGGTATTC
Statistics
Matches: 94, Mismatches: 9, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
119 94 1.00
ACGTcount: A:0.26, C:0.26, G:0.15, T:0.33
Consensus pattern (119 bp):
CTTCAAAATGCCCCAACACCTAAAATTGTAAGGCTCATTCTCAATGCCTCCTTAGTCTGAATCTT
ATCATCTCAACATGATGTGGGTTCAGTCATGCCCCAATATTATCTTATACGGGC
Found at i:26965 original size:17 final size:18
Alignment explanation
Indices: 26936--26972 Score: 58
Period size: 17 Copynumber: 2.1 Consensus size: 18
26926 TTACATTTTA
*
26936 TTTTAATTAAAAGTTATT
1 TTTTAATTAAAAGATATT
26954 TTTTAATT-AAAGATATT
1 TTTTAATTAAAAGATATT
26971 TT
1 TT
26973 ATTTGTTTAC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
17 10 0.56
18 8 0.44
ACGTcount: A:0.38, C:0.00, G:0.05, T:0.57
Consensus pattern (18 bp):
TTTTAATTAAAAGATATT
Found at i:31572 original size:54 final size:55
Alignment explanation
Indices: 31427--31578 Score: 200
Period size: 55 Copynumber: 2.8 Consensus size: 55
31417 AAGTGTGCAG
* * ** *
31427 AAAACTTAAGAAATTCAGACTAAGTGTATGAATTTCTGTATGGGCACTTTTTGTGC
1 AAAAC-TAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACAATGTGTGC
*
31483 AAAACTAAAAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACAATGTGTGC
1 AAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACAATGTGTGC
* * *
31538 GAAA-TAAGAAATTCATACCAAGTGTATAAATTTCC-TATGGG
1 AAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGG
31579 AAATATGTGA
Statistics
Matches: 86, Mismatches: 10, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
53 6 0.07
54 28 0.33
55 47 0.55
56 5 0.06
ACGTcount: A:0.37, C:0.13, G:0.18, T:0.32
Consensus pattern (55 bp):
AAAACTAAGAAATTCATACTAAGTGTATGAATTTCCGTATGGGCACAATGTGTGC
Found at i:31863 original size:68 final size:68
Alignment explanation
Indices: 31754--32335 Score: 918
Period size: 68 Copynumber: 8.7 Consensus size: 68
31744 AGATTCATAC
* * * *
31754 GCCTAATTGTGCAATTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAAGCTAAGTGTCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
31819 GAG
66 GAG
* * * *
31822 GCCTAACTGTGCATTTGACGGAAAAGTATCATTTATGCCAGTTAGATGAAAGGCTAAGTGTCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
31887 GAG
66 GAG
*
31890 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
31955 AAG
66 GAG
*
31958 GCCTAACTGTGCATTTGACAGAAAGGTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
32023 GAG
66 GAG
*
32026 GCCTAATTGTGCATTTGAC----A---G--A---ATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
32079 GAG
66 GAG
*
32082 GCCTAAATGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
*
32147 AAG
66 GAG
*
32150 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAATTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
32215 GAG
66 GAG
* *
32218 GCCTAATTGTACATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
32283 GAG
66 GAG
*
32286 GCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
1 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
32336 CGGTAAAATA
Statistics
Matches: 475, Mismatches: 27, Indels: 24
0.90 0.05 0.05
Matches are distributed among these distances:
56 52 0.11
59 1 0.00
60 1 0.00
61 1 0.00
63 1 0.00
64 1 0.00
65 1 0.00
68 417 0.88
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (68 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
GAG
Found at i:32186 original size:192 final size:196
Alignment explanation
Indices: 31754--32335 Score: 848
Period size: 192 Copynumber: 2.9 Consensus size: 196
31744 AGATTCATAC
* * * * * *
31754 GCCTAATTGTGCAATTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAAGCTAAGTGTCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTAATTTATGCCAATTAGATGAAAGGCTAAGTGCCTTT
* * * *
31819 GAGGCCTAACTGTGCATTTGACGGAAAAGTATCATTTATGCCAGTTAGATGAAAGGCTAAGTGTC
66 GAGGCCTAATTGTACATTTGAC----AAG--GCA--TATGCCAGTTAGATGAAAGGCTAAGTGCC
*
31884 TTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGTTAAGT
123 TTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGT
31949 GCCTTTAAG
188 GCCTTTAAG
*
31958 GCCTAACTGTGCATTTGACAGAAAGGTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTAATTTATGCCAATTAGATGAAAGGCTAAGTGCCTTT
*
32023 GAGGCCTAATTGTGCATTTGAC-A-G-A-ATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
66 GAGGCCTAATTGTACATTTGACAAGGCATATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
*
32084 CTAAATGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAA
131 CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAA
32149 G
196 G
*
32150 GCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAATTAGATGAAAGGCTAAGTGCCTTT
1 GCCTAACTGTGCATTTGACAGAAAGGTGTAATTTATGCCAATTAGATGAAAGGCTAAGTGCCTTT
32215 GAGGCCTAATTGTACATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCC
66 GAGGCCTAATTGTACATTTGAC---AA-G-G-CA--TATGCCAGTTAGATGAAAGGCTAAGTGCC
*
32280 TTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAA
123 TTTGAGGCCTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAA
32336 CGGTAAAATA
Statistics
Matches: 351, Mismatches: 15, Indels: 24
0.90 0.04 0.06
Matches are distributed among these distances:
192 183 0.52
195 1 0.00
196 1 0.00
199 2 0.01
201 1 0.00
204 163 0.46
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (196 bp):
GCCTAACTGTGCATTTGACAGAAAGGTGTAATTTATGCCAATTAGATGAAAGGCTAAGTGCCTTT
GAGGCCTAATTGTACATTTGACAAGGCATATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGC
CTAACTGTGCATTTGACAGAAAGGTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAA
G
Found at i:32254 original size:260 final size:260
Alignment explanation
Indices: 31788--32308 Score: 907
Period size: 260 Copynumber: 2.0 Consensus size: 260
31778 GGTGTCATTT
* * *
31788 ATGCCAGTTAGATGAAAAGCTAAGTGTCTTTGAGGCCTAACTGTGCATTTGACGGAAAAGTATCA
1 ATGCCAGTTAGATGAAAAGCTAAGTGCCTTTGAGGCCTAAATGTGCATTTGACAGAAAAGTATCA
* *
31853 TTTATGCCAGTTAGATGAAAGGCTAAGTGTCTTTGAGGCCTAACTGTGCATTTGACAGAAAGGTG
66 TTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTGCATTTGACAGAAAGGTG
* * *
31918 TCATTTATGCCAGTTAGATGAAAGGTTAAGTGCCTTTAAGGCCTAACTGTGCATTTGACAGAAAG
131 TCATTTATGCCAATTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTACATTTGACAGAAAG
*
31983 GTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTGTGCATTTGACAGA
196 GTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGA
* * *
32048 ATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAAATGTGCATTTGACAGAAAGGTGTCA
1 ATGCCAGTTAGATGAAAAGCTAAGTGCCTTTGAGGCCTAAATGTGCATTTGACAGAAAAGTATCA
32113 TTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTGCATTTGACAGAAAGGTG
66 TTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTGCATTTGACAGAAAGGTG
* *
32178 TCATTTATGCCAATTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAATTGTACATTTGACAGAAAG
131 TCATTTATGCCAATTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTACATTTGACAGAAAG
*
32243 GTGTCATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGA
196 GTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGA
32308 A
1 A
32309 AGGTGTCAAT
Statistics
Matches: 246, Mismatches: 15, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
260 246 1.00
ACGTcount: A:0.30, C:0.15, G:0.25, T:0.30
Consensus pattern (260 bp):
ATGCCAGTTAGATGAAAAGCTAAGTGCCTTTGAGGCCTAAATGTGCATTTGACAGAAAAGTATCA
TTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTGCATTTGACAGAAAGGTG
TCATTTATGCCAATTAGATGAAAGGCTAAGTGCCTTTAAGGCCTAACTGTACATTTGACAGAAAG
GTGTAATTTATGCCAGTTAGATGAAAGGCTAAGTGCCTTTGAGGCCTAACTGTGCATTTGACAGA
Found at i:32426 original size:81 final size:81
Alignment explanation
Indices: 32285--32492 Score: 362
Period size: 81 Copynumber: 2.6 Consensus size: 81
32275 GTGCCTTTGA
* *
32285 GGCCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTAAAATACCGT
1 GGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTAAAATACCGT
32350 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* *
32366 GGTCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGT
1 GGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTAAAATACCGT
32431 TGAGTAAAAGAATAAT
66 TGAGTAAAAGAATAAT
* *
32447 GGCCTAACTGTGCATTTGGCAGCAAGGTGTCAATTATGCCCGTTAG
1 GGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAG
32493 TTGTGCATTT
Statistics
Matches: 120, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
81 120 1.00
ACGTcount: A:0.33, C:0.15, G:0.25, T:0.27
Consensus pattern (81 bp):
GGCCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTAAAATACCGT
TGAGTAAAAGAATAAT
Found at i:32531 original size:39 final size:39
Alignment explanation
Indices: 32455--32531 Score: 118
Period size: 39 Copynumber: 2.0 Consensus size: 39
32445 ATGGCCTAAC
* * *
32455 TGTGCATTTGGCAGCAAGGTGTCAATTATGCCCGTTAGT
1 TGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGT
*
32494 TGTGCATTTGGCAGAAAAGTGTCAATTATGTCAGTTAG
1 TGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAG
32532 ATGAACGGTT
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 34 1.00
ACGTcount: A:0.25, C:0.14, G:0.27, T:0.34
Consensus pattern (39 bp):
TGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGT
Found at i:32591 original size:120 final size:120
Alignment explanation
Indices: 32374--32609 Score: 427
Period size: 120 Copynumber: 2.0 Consensus size: 120
32364 ATGGTCTAAC
*
32374 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
1 TGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
32439 AGAATAATGGCCTAACTGTGCATTTGGCAGCAAGGTGTCAATTATGCCCGTTAGT
66 AGAATAATGGCCTAACTGTGCATTTGGCAGCAAGGTGTCAATTATGCCCGTTAGT
* * *
32494 TGTGCATTTGGCAGAAAAGTGTCAATTATGTCAGTTAGATGAACGGTTAATTACCGTTGAGTAAA
1 TGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
*
32559 AGAATAATGGCCTAACTGTGCATTTGGTAGCAAGGTGTCAATTATGCCCGT
66 AGAATAATGGCCTAACTGTGCATTTGGCAGCAAGGTGTCAATTATGCCCGT
32610 AGATGAACGG
Statistics
Matches: 111, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
120 111 1.00
ACGTcount: A:0.31, C:0.14, G:0.25, T:0.30
Consensus pattern (120 bp):
TGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACAGTTAAATACCGTTGAGTAAA
AGAATAATGGCCTAACTGTGCATTTGGCAGCAAGGTGTCAATTATGCCCGTTAGT
Found at i:32728 original size:81 final size:81
Alignment explanation
Indices: 32494--32884 Score: 595
Period size: 81 Copynumber: 4.8 Consensus size: 81
32484 GCCCGTTAGT
* * *
32494 TGTGCATTTGGCAGAAAAGTGTCAATTATGTCAGTTAGATGAACGGTTAATTACCGTTGAGTAAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
32559 AGAATAATGGCCTAAC
66 AGAATAATGGCCTAAC
* * *
32575 TGTGCATTTGGTAGCAAGGTGTCAATTATGCCCG-TAGATGAACGGTTAAATACCGTTGAGTAAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
* *
32639 AGAATAATGGTCTATC
66 AGAATAATGGCCTAAC
* * *
32655 TGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACTGTTGAGTAAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
32720 AGAATAATGGCCTAAC
66 AGAATAATGGCCTAAC
* * * *
32736 AGTGCATTTGGCAGCAAGGTGTCAATTATGCCTGTTAGATGAACGGTTAAATAGCGTTGAGTAAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
*
32801 AGAATAATGACCTAAC
66 AGAATAATGGCCTAAC
* * * *
32817 TGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACTGTTGAGTAAA
1 TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
32882 AGA
66 AGA
32885 TGAACGGTTA
Statistics
Matches: 277, Mismatches: 32, Indels: 2
0.89 0.10 0.01
Matches are distributed among these distances:
80 73 0.26
81 204 0.74
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (81 bp):
TGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACCGTTGAGTAAA
AGAATAATGGCCTAAC
Found at i:32757 original size:362 final size:353
Alignment explanation
Indices: 32292--32991 Score: 997
Period size: 362 Copynumber: 2.0 Consensus size: 353
32282 TGAGGCCTAA
*
32292 CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTAAAATACCGTTGAGTAA
1 CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATAAAATACCGTTGAGTAA
* *
32357 AAGAATAATGGTCTAACTGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTT
66 AAGAATAATGGCCTAACAGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTT
* * *
32422 AAATACCGTTGAGTAAAAGAATAATGGCCTAACTGTGCATTTGGCAGCAAGGTGTCAATTATGCC
131 AAATACCGTTGAGTAAAAGAATAATGACCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCC
* * ** * * * ** *
32487 CGTTAGTTGTGCATTTGGCAGAAAAGTGTCAATTATGTCAGTTAGATGAACGGTTAATTACCGTT
196 AGTTAGATGAACAGTT---A-AAAACTGT---TGA-GT-A-AAAGATGAACGGTTAAATACCGTT
* * * *
32552 GAGTAAAAGAATAATGGCCTAACTGTGCATTTGGTAGCAAGGTGTCAATTATGCCCG-TAGATGA
251 GAGTAAAAGAATAATGGCCTAACTGTGCATTTAGCAGAAAGGTGTCAATTATGCCAGTTAGATGA
*
32616 ACGGTTAAATACCGTTGAGTAAAAGAATAATGGTCTAT
316 ACGGTTAAACACCGTTGAGTAAAAGAATAATGGTCTAT
* * * *
32654 CTGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACTGTTGAGTAA
1 CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATAAAATACCGTTGAGTAA
* * *
32719 AAGAATAATGGCCTAACAGTGCATTTGGCAGCAAGGTGTCAATTATGCCTGTTAGATGAACGGTT
66 AAGAATAATGGCCTAACAGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTT
* *
32784 AAATAGCGTTGAGTAAAAGAATAATGACCTAACTGTGCATTTGACATAAAGGTGTCAATTATGCC
131 AAATACCGTTGAGTAAAAGAATAATGACCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCC
* *
32849 AGTTAGATGAACGGTTAAACACTGTTGAGTAAAAGATGAACGGTTAAATACCGTTGAGTAAAAGA
196 AGTTAGATGAACAGTTAAAAACTGTTGAGTAAAAGATGAACGGTTAAATACCGTTGAGTAAAAGA
*
32914 ATAATTGCCTAACTGTGCATTTAGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAC
261 ATAATGGCCTAACTGTGCATTTAGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAC
*
32979 ACTGTTGAGTAAA
326 ACCGTTGAGTAAA
32992 GGATTAACGG
Statistics
Matches: 303, Mismatches: 34, Indels: 11
0.87 0.10 0.03
Matches are distributed among these distances:
352 73 0.24
353 29 0.10
354 2 0.01
355 2 0.01
358 6 0.02
359 1 0.00
362 190 0.63
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (353 bp):
CTGTGCATTTGACAGAAAGGTGTCAATTATGCCAGTTAGATGAACGATAAAATACCGTTGAGTAA
AAGAATAATGGCCTAACAGTGCATTTGGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACAGTT
AAATACCGTTGAGTAAAAGAATAATGACCTAACTGTGCATTTGACAGAAAGGTGTCAATTATGCC
AGTTAGATGAACAGTTAAAAACTGTTGAGTAAAAGATGAACGGTTAAATACCGTTGAGTAAAAGA
ATAATGGCCTAACTGTGCATTTAGCAGAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAAC
ACCGTTGAGTAAAAGAATAATGGTCTAT
Found at i:32759 original size:161 final size:162
Alignment explanation
Indices: 32494--32884 Score: 631
Period size: 161 Copynumber: 2.4 Consensus size: 162
32484 GCCCGTTAGT
* * *
32494 TGTGCATTTGGCAGAAAAGTGTCAATTATGTCAGTTAGATGAACGGTTAATTACCGTTGAGTAAA
1 TGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAA
* *
32559 AGAATAATGGCCTAACTGTGCATTTGGTAGCAAGGTGTCAATTATGCCCG-TAGATGAACGGTTA
66 AGAATAATGGCCTAACAGTGCATTTGGCAGCAAGGTGTCAATTATGCCCGTTAGATGAACGGTTA
** *
32623 AATACCGTTGAGTAAAAGAATAATGGTCTATC
131 AATACCGTTGAGTAAAAGAATAATGACCTAAC
* *
32655 TGTGCATTTGGCAGAAATGTGTCAATTATGCCAGTTAGATGAACGATTAAATACTGTTGAGTAAA
1 TGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAA
*
32720 AGAATAATGGCCTAACAGTGCATTTGGCAGCAAGGTGTCAATTATGCCTGTTAGATGAACGGTTA
66 AGAATAATGGCCTAACAGTGCATTTGGCAGCAAGGTGTCAATTATGCCCGTTAGATGAACGGTTA
*
32785 AATAGCGTTGAGTAAAAGAATAATGACCTAAC
131 AATACCGTTGAGTAAAAGAATAATGACCTAAC
* * * *
32817 TGTGCATTTGACATAAAGGTGTCAATTATGCCAGTTAGATGAACGGTTAAACACTGTTGAGTAAA
1 TGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAA
32882 AGA
66 AGA
32885 TGAACGGTTA
Statistics
Matches: 212, Mismatches: 17, Indels: 1
0.92 0.07 0.00
Matches are distributed among these distances:
161 107 0.50
162 105 0.50
ACGTcount: A:0.34, C:0.13, G:0.24, T:0.29
Consensus pattern (162 bp):
TGTGCATTTGGCAGAAAAGTGTCAATTATGCCAGTTAGATGAACGGTTAAATACTGTTGAGTAAA
AGAATAATGGCCTAACAGTGCATTTGGCAGCAAGGTGTCAATTATGCCCGTTAGATGAACGGTTA
AATACCGTTGAGTAAAAGAATAATGACCTAAC
Found at i:32895 original size:29 final size:29
Alignment explanation
Indices: 32853--32913 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
32843 TATGCCAGTT
*
32853 AGATGAACGGTTAAACACTGTTGAGTAAA
1 AGATGAACGGTTAAACACCGTTGAGTAAA
*
32882 AGATGAACGGTTAAATACCGTTGAGTAAA
1 AGATGAACGGTTAAACACCGTTGAGTAAA
32911 AGA
1 AGA
32914 ATAATTGCCT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.43, C:0.10, G:0.25, T:0.23
Consensus pattern (29 bp):
AGATGAACGGTTAAACACCGTTGAGTAAA
Found at i:32965 original size:110 final size:111
Alignment explanation
Indices: 32772--33066 Score: 436
Period size: 110 Copynumber: 2.7 Consensus size: 111
32762 TATGCCTGTT
* *
32772 AGATGAACGGTTAAATAGCGTTGAGTAAAAGAATAA-TGACCTAACTGTGCATTTGACATAAAGG
1 AGATGAACGGTTAAATACCGTTGAGTAAAAGAATAATTGACCTAACTGTGCATTTGACAGAAAGG
32836 TGTCAATTATGCCAGTTAGATGAACGGTTAAACACTGTTGAGTAAA
66 TGTCAATTATGCCAGTTAGATGAACGGTTAAACACTGTTGAGTAAA
32882 AGATGAACGGTTAAATACCGTTGAGTAAAAGAATAATTG-CCTAACTGTGCATTT-AGCAGAAAG
1 AGATGAACGGTTAAATACCGTTGAGTAAAAGAATAATTGACCTAACTGTGCATTTGA-CAGAAAG
32945 GTGTCAATTATGCCAGTTAGATGAACGGTTAAACACTGTTGAGTAAA
65 GTGTCAATTATGCCAGTTAGATGAACGGTTAAACACTGTTGAGTAAA
* * * * * * ** * *
32992 GGATTAACGGTTAAACACTGTTGAGTAAAAGAATAATGGA-ATCGCTTTGCATTTGACAGAAAAG
1 AGATGAACGGTTAAATACCGTTGAGTAAAAGAATAATTGACCTAACTGTGCATTTGACAGAAAGG
*
33056 TGTCAAATATG
66 TGTCAATTATG
33067 TAAGTTAAAG
Statistics
Matches: 168, Mismatches: 13, Indels: 8
0.89 0.07 0.04
Matches are distributed among these distances:
109 1 0.01
110 164 0.98
111 3 0.02
ACGTcount: A:0.38, C:0.12, G:0.23, T:0.27
Consensus pattern (111 bp):
AGATGAACGGTTAAATACCGTTGAGTAAAAGAATAATTGACCTAACTGTGCATTTGACAGAAAGG
TGTCAATTATGCCAGTTAGATGAACGGTTAAACACTGTTGAGTAAA
Found at i:38842 original size:20 final size:20
Alignment explanation
Indices: 38805--38863 Score: 66
Period size: 20 Copynumber: 2.9 Consensus size: 20
38795 CAGAACCCTA
* *
38805 GGGGGTATCGATTCCC-CTGT
1 GGGGGGATCGATTCCCTC-AT
*
38825 GGGGGGAATCGGTTCCCTCAT
1 GGGGGG-ATCGATTCCCTCAT
38846 GGGGGGATCGATTCCCTC
1 GGGGGGATCGATTCCCTC
38864 TGCACCAAAA
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
20 16 0.48
21 16 0.48
22 1 0.03
ACGTcount: A:0.12, C:0.25, G:0.37, T:0.25
Consensus pattern (20 bp):
GGGGGGATCGATTCCCTCAT
Found at i:44635 original size:21 final size:22
Alignment explanation
Indices: 44611--44699 Score: 128
Period size: 22 Copynumber: 4.1 Consensus size: 22
44601 AAACCATTCA
*
44611 GGGGAATCGGTACCCCCATGGG
1 GGGGAATCGGTACCCCCTTGGG
*
44633 GGGGAATCGGTAACCCCTTGGG
1 GGGGAATCGGTACCCCCTTGGG
*
44655 GGGGAATCGGTACCCCCTT-AG
1 GGGGAATCGGTACCCCCTTGGG
*
44676 GGGGAATCGGTA-ACCCTTGGG
1 GGGGAATCGGTACCCCCTTGGG
44697 GGG
1 GGG
44700 AATTGGTTCC
Statistics
Matches: 60, Mismatches: 6, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.08
21 17 0.28
22 38 0.63
ACGTcount: A:0.18, C:0.24, G:0.42, T:0.17
Consensus pattern (22 bp):
GGGGAATCGGTACCCCCTTGGG
Found at i:44699 original size:43 final size:44
Alignment explanation
Indices: 44611--44699 Score: 146
Period size: 44 Copynumber: 2.1 Consensus size: 44
44601 AAACCATTCA
*
44611 GGGGAATCGGTACCCCCATGGGGGGGAATCGGTAACCCCTTGGG
1 GGGGAATCGGTACCCCCATGAGGGGGAATCGGTAACCCCTTGGG
*
44655 GGGGAATCGGTACCCCC-TTAGGGGGAATCGGTAA-CCCTTGGG
1 GGGGAATCGGTACCCCCATGAGGGGGAATCGGTAACCCCTTGGG
44697 GGG
1 GGG
44700 AATTGGTTCC
Statistics
Matches: 43, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
42 11 0.26
43 15 0.35
44 17 0.40
ACGTcount: A:0.18, C:0.24, G:0.42, T:0.17
Consensus pattern (44 bp):
GGGGAATCGGTACCCCCATGAGGGGGAATCGGTAACCCCTTGGG
Found at i:45157 original size:19 final size:20
Alignment explanation
Indices: 45125--45176 Score: 88
Period size: 19 Copynumber: 2.6 Consensus size: 20
45115 CTTAGCTTAG
*
45125 GAGTATTAATACTGATATGA
1 GAGTATTGATACTGATATGA
45145 GAGTA-TGATACTGATATGA
1 GAGTATTGATACTGATATGA
45164 GAGTATTGATACT
1 GAGTATTGATACT
45177 ACCCCTTTTT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
19 18 0.60
20 12 0.40
ACGTcount: A:0.37, C:0.06, G:0.23, T:0.35
Consensus pattern (20 bp):
GAGTATTGATACTGATATGA
Found at i:45252 original size:20 final size:20
Alignment explanation
Indices: 45211--45257 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 20
45201 AGTAGTAGAT
*
45211 TACCGATACTCAAGGGTTAG
1 TACCGATACTCAAGGGTCAG
*
45231 TACCGATAC-CGAGAGGTCAG
1 TACCGATACTCAAG-GGTCAG
*
45251 TATCGAT
1 TACCGAT
45258 TTCAGTGTAC
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
19 3 0.13
20 20 0.87
ACGTcount: A:0.30, C:0.21, G:0.26, T:0.23
Consensus pattern (20 bp):
TACCGATACTCAAGGGTCAG
Found at i:47151 original size:25 final size:26
Alignment explanation
Indices: 47123--47173 Score: 68
Period size: 26 Copynumber: 2.0 Consensus size: 26
47113 AAATTTAATG
*
47123 TCAATTA-GGTTGAAAATCATTTTTT
1 TCAATTACGGTTGAAAATCAATTTTT
**
47148 TCAATTACGGTTTTAAATCAATTTTT
1 TCAATTACGGTTGAAAATCAATTTTT
47174 GAGTGTTTGA
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
25 7 0.32
26 15 0.68
ACGTcount: A:0.31, C:0.10, G:0.10, T:0.49
Consensus pattern (26 bp):
TCAATTACGGTTGAAAATCAATTTTT
Found at i:48376 original size:16 final size:16
Alignment explanation
Indices: 48355--48402 Score: 51
Period size: 16 Copynumber: 3.0 Consensus size: 16
48345 AAGCAATCTG
48355 AACCGAATTTAACCCA
1 AACCGAATTTAACCCA
** * *
48371 AACCGAAAGTAACTCG
1 AACCGAATTTAACCCA
*
48387 AACCAAATTTAACCCA
1 AACCGAATTTAACCCA
48403 TCTGAAAGTA
Statistics
Matches: 23, Mismatches: 9, Indels: 0
0.72 0.28 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.46, C:0.29, G:0.08, T:0.17
Consensus pattern (16 bp):
AACCGAATTTAACCCA
Found at i:48427 original size:32 final size:33
Alignment explanation
Indices: 48355--48427 Score: 89
Period size: 32 Copynumber: 2.3 Consensus size: 33
48345 AAGCAATCTG
* *
48355 AACCG-AATTTAACCCAAACCGAAAGTAACTCG
1 AACCGAAATTTAACCCAAACCGAAAGTAACACA
* *
48387 AACC-AAATTTAACCC-ATCTGAAAGTAACACA
1 AACCGAAATTTAACCCAAACCGAAAGTAACACA
48418 AACCGAAATT
1 AACCGAAATT
48428 AATCTGAATC
Statistics
Matches: 35, Mismatches: 4, Indels: 4
0.81 0.09 0.09
Matches are distributed among these distances:
31 16 0.46
32 19 0.54
ACGTcount: A:0.47, C:0.26, G:0.10, T:0.18
Consensus pattern (33 bp):
AACCGAAATTTAACCCAAACCGAAAGTAACACA
Found at i:48645 original size:32 final size:32
Alignment explanation
Indices: 48609--48677 Score: 75
Period size: 32 Copynumber: 2.2 Consensus size: 32
48599 GATCTAAAGG
* *
48609 TTGACTCAAATAGAAAATCAACCAATTTGATA
1 TTGACACAAATAGAAAATCAACCAATTCGATA
* * ** *
48641 TTGACACGATTCTAAAATCAACCGATTCGATA
1 TTGACACAAATAGAAAATCAACCAATTCGATA
48673 TTGAC
1 TTGAC
48678 CCGACCCAAA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
32 30 1.00
ACGTcount: A:0.41, C:0.19, G:0.12, T:0.29
Consensus pattern (32 bp):
TTGACACAAATAGAAAATCAACCAATTCGATA
Found at i:48694 original size:32 final size:32
Alignment explanation
Indices: 48622--48708 Score: 113
Period size: 32 Copynumber: 2.7 Consensus size: 32
48612 ACTCAAATAG
* * * *
48622 AAAATCAACCAATTTGATATTGACACGATTCT
1 AAAATCAACCGATTCGATATTGACACGATCCC
*
48654 AAAATCAACCGATTCGATATTGACCCGA-CCC
1 AAAATCAACCGATTCGATATTGACACGATCCC
48685 AAAAGTCAACCGATTCGATATTGA
1 AAAA-TCAACCGATTCGATATTGA
48709 TCCAAACAAA
Statistics
Matches: 49, Mismatches: 5, Indels: 2
0.88 0.09 0.04
Matches are distributed among these distances:
31 5 0.10
32 44 0.90
ACGTcount: A:0.39, C:0.23, G:0.13, T:0.25
Consensus pattern (32 bp):
AAAATCAACCGATTCGATATTGACACGATCCC
Found at i:49248 original size:22 final size:21
Alignment explanation
Indices: 49216--49268 Score: 65
Period size: 22 Copynumber: 2.6 Consensus size: 21
49206 TTTATATATT
*
49216 TTAAAA-T-AAATATTTATAA
1 TTAAAATTAAAATATTAATAA
49235 TATAAAATTAAAATATTAATAA
1 T-TAAAATTAAAATATTAATAA
*
49257 TTAGAATTAAAA
1 TTAAAATTAAAA
49269 CAAGAAGGTT
Statistics
Matches: 29, Mismatches: 2, Indels: 4
0.83 0.06 0.11
Matches are distributed among these distances:
19 1 0.03
20 5 0.17
21 11 0.38
22 12 0.41
ACGTcount: A:0.60, C:0.00, G:0.02, T:0.38
Consensus pattern (21 bp):
TTAAAATTAAAATATTAATAA
Found at i:49264 original size:21 final size:22
Alignment explanation
Indices: 49223--49268 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
49213 ATTTTAAAAT
*
49223 AAATATTTATAATATAAAATTA
1 AAATATTAATAATATAAAATTA
*
49245 AAATATTAATAAT-TAGAATTA
1 AAATATTAATAATATAAAATTA
49266 AAA
1 AAA
49269 CAAGAAGGTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
21 10 0.45
22 12 0.55
ACGTcount: A:0.61, C:0.00, G:0.02, T:0.37
Consensus pattern (22 bp):
AAATATTAATAATATAAAATTA
Found at i:50035 original size:26 final size:27
Alignment explanation
Indices: 50006--50068 Score: 110
Period size: 26 Copynumber: 2.4 Consensus size: 27
49996 TTTATAATAA
*
50006 ATTTTATTATTTTTTTTG-AAAAAATT
1 ATTTTATTATTTTTTTTGAAAAAAAAT
50032 ATTTTATTATTTTTTTTGAAAAAAAAT
1 ATTTTATTATTTTTTTTGAAAAAAAAT
50059 ATTTTATTAT
1 ATTTTATTAT
50069 ATTTAAAGAA
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
26 18 0.51
27 17 0.49
ACGTcount: A:0.37, C:0.00, G:0.03, T:0.60
Consensus pattern (27 bp):
ATTTTATTATTTTTTTTGAAAAAAAAT
Found at i:50079 original size:27 final size:27
Alignment explanation
Indices: 50024--50080 Score: 69
Period size: 27 Copynumber: 2.1 Consensus size: 27
50014 ATTTTTTTTG
* * ***
50024 AAAAAATTATTTTATTATTTTTTTTGA
1 AAAAAAATATTTTATTATATTTAAAGA
50051 AAAAAAATATTTTATTATATTTAAAGA
1 AAAAAAATATTTTATTATATTTAAAGA
50078 AAA
1 AAA
50081 CTTTTTTTGG
Statistics
Matches: 25, Mismatches: 5, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
27 25 1.00
ACGTcount: A:0.49, C:0.00, G:0.04, T:0.47
Consensus pattern (27 bp):
AAAAAAATATTTTATTATATTTAAAGA
Found at i:52049 original size:14 final size:15
Alignment explanation
Indices: 52018--52050 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
52008 TCTATTTTCA
*
52018 TTATTTTCTACTTTT
1 TTATTTTCTACATTT
52033 TTATTTTCT-CATTT
1 TTATTTTCTACATTT
52047 TTAT
1 TTAT
52051 AAATTATAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 8 0.47
15 9 0.53
ACGTcount: A:0.15, C:0.12, G:0.00, T:0.73
Consensus pattern (15 bp):
TTATTTTCTACATTT
Found at i:61098 original size:20 final size:20
Alignment explanation
Indices: 61069--61106 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
61059 CCCTTCAAAG
*
61069 GGGGGAATCGGTTCCCTCAT
1 GGGGGAATCGATTCCCTCAT
*
61089 GGGGGTATCGATTCCCTC
1 GGGGGAATCGATTCCCTC
61107 TGCACCAAAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.13, C:0.26, G:0.34, T:0.26
Consensus pattern (20 bp):
GGGGGAATCGATTCCCTCAT
Done.