Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01005787.1 Hibiscus syriacus cultivar Beakdansim tig00013559_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: 54053
ACGTcount: A:0.34, C:0.16, G:0.17, T:0.34
Found at i:9832 original size:18 final size:18
Alignment explanation
Indices: 9809--9876 Score: 70
Period size: 18 Copynumber: 3.7 Consensus size: 18
9799 CTTTTGGAAA
9809 TTTAAAATTATT-ATATAT
1 TTTAAAATT-TTAATATAT
9827 TTTAAAATTTTAATATAT
1 TTTAAAATTTTAATATAT
9845 TTTATTAAATCTTTAA-A-AT
1 TTTA--AAAT-TTTAATATAT
*
9864 TTTAAAAGTTTAA
1 TTTAAAATTTTAA
9877 GCGTGTACTT
Statistics
Matches: 45, Mismatches: 1, Indels: 10
0.80 0.02 0.18
Matches are distributed among these distances:
16 5 0.11
17 5 0.11
18 19 0.42
19 6 0.13
20 5 0.11
21 5 0.11
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (18 bp):
TTTAAAATTTTAATATAT
Found at i:9838 original size:8 final size:8
Alignment explanation
Indices: 9809--9876 Score: 55
Period size: 8 Copynumber: 7.6 Consensus size: 8
9799 CTTTTGGAAA
9809 TTTAAAAT
1 TTTAAAAT
*
9817 TATTATATAT
1 T-TTA-AAAT
9827 TTTAAAAT
1 TTTAAAAT
9835 TTTAATATAT
1 TTTAA-A-AT
9845 TTTATTAAAT
1 TTTA--AAAT
9855 CTTTAAAAT
1 -TTTAAAAT
*
9864 TTTAAAAG
1 TTTAAAAT
9872 TTTAA
1 TTTAA
9877 GCGTGTACTT
Statistics
Matches: 50, Mismatches: 3, Indels: 14
0.75 0.04 0.21
Matches are distributed among these distances:
8 21 0.42
9 11 0.22
10 12 0.24
11 5 0.10
12 1 0.02
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.53
Consensus pattern (8 bp):
TTTAAAAT
Found at i:11418 original size:60 final size:60
Alignment explanation
Indices: 11301--11437 Score: 161
Period size: 60 Copynumber: 2.3 Consensus size: 60
11291 AACCTAGGAT
* * * *
11301 AAAG-TACACAAATGGTCCCTTGACTATAGGGTGTTGCTTTATTGAATCCTTTAACTATTA
1 AAAGTTACA-AAATGGTCCCCTAACTATAGGATGTTGCTTTATTGAATCCTTCAACTATTA
** * * *
11361 AATTTTACAAAATGGTCCCCTAACTATAGGATGTTGCTTTCTTGAGT-CTCTCGACTATTA
1 AAAGTTACAAAATGGTCCCCTAACTATAGGATGTTGCTTTATTGAATCCT-TCAACTATTA
11421 AAAGTTACAAAATGGTC
1 AAAGTTACAAAATGGTC
11438 ATTCAAATAT
Statistics
Matches: 64, Mismatches: 11, Indels: 4
0.81 0.14 0.05
Matches are distributed among these distances:
59 2 0.03
60 58 0.91
61 4 0.06
ACGTcount: A:0.31, C:0.18, G:0.16, T:0.36
Consensus pattern (60 bp):
AAAGTTACAAAATGGTCCCCTAACTATAGGATGTTGCTTTATTGAATCCTTCAACTATTA
Found at i:13517 original size:2 final size:2
Alignment explanation
Indices: 13510--13548 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
13500 ATGAGAAAGG
13510 AT AT 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 AT AT A
13549 CATACATACA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:14485 original size:21 final size:21
Alignment explanation
Indices: 14450--14490 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
14440 TAGCGTGTCA
* * *
14450 GTTCACGGTGTTGACGTGACG
1 GTTCACGATGCTGACATGACG
14471 GTTCACGATGCTGACATGAC
1 GTTCACGATGCTGACATGAC
14491 ATACAATCTG
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.20, C:0.22, G:0.32, T:0.27
Consensus pattern (21 bp):
GTTCACGATGCTGACATGACG
Found at i:16642 original size:36 final size:37
Alignment explanation
Indices: 16602--16681 Score: 90
Period size: 39 Copynumber: 2.1 Consensus size: 37
16592 TGAGCTAAAT
* *
16602 ATGAAG-ACTCCACGACTCCATGATGTCTTCAGGCAA
1 ATGAAGAACCCCACGACTCCATGACGTCTTCAGGCAA
* * *
16638 ATGAAGAAAACCCCACGATTGCATGACGTTTTCAGGCAA
1 ATGAAG--AACCCCACGACTCCATGACGTCTTCAGGCAA
16677 ATGAA
1 ATGAA
16682 CCCAAGAGGA
Statistics
Matches: 36, Mismatches: 5, Indels: 3
0.82 0.11 0.07
Matches are distributed among these distances:
36 6 0.17
39 30 0.83
ACGTcount: A:0.35, C:0.24, G:0.20, T:0.21
Consensus pattern (37 bp):
ATGAAGAACCCCACGACTCCATGACGTCTTCAGGCAA
Found at i:20928 original size:60 final size:60
Alignment explanation
Indices: 20834--20949 Score: 160
Period size: 60 Copynumber: 1.9 Consensus size: 60
20824 TAGTCCCCTG
* * * * *
20834 ACTACAGTGTATTGCTTTATTAAGTCCTTTGACTATGAAAAGTTACAGAATGATCATCTA
1 ACTACAGAGTATTGCTTCATTAAGTCCATCGACTATGAAAAGTTACAAAATGATCATCTA
* * *
20894 ACTACAGAGTGTTGCTTCGTTAAGTCCATCGACTATTAAAAGTTACAAAATGATCA
1 ACTACAGAGTATTGCTTCATTAAGTCCATCGACTATGAAAAGTTACAAAATGATCA
20950 CTCCACTATT
Statistics
Matches: 48, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
60 48 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (60 bp):
ACTACAGAGTATTGCTTCATTAAGTCCATCGACTATGAAAAGTTACAAAATGATCATCTA
Found at i:21931 original size:7 final size:8
Alignment explanation
Indices: 21905--21944 Score: 55
Period size: 8 Copynumber: 5.1 Consensus size: 8
21895 TTTTTAAATT
*
21905 TAATATTA
1 TAATATAA
21913 TAATATAA
1 TAATATAA
21921 TAATA-AA
1 TAATATAA
*
21928 TAATATTA
1 TAATATAA
21936 TAATATAA
1 TAATATAA
21944 T
1 T
21945 TAACAAATTA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
7 7 0.25
8 21 0.75
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.42
Consensus pattern (8 bp):
TAATATAA
Found at i:27339 original size:5 final size:5
Alignment explanation
Indices: 27324--27355 Score: 55
Period size: 5 Copynumber: 6.4 Consensus size: 5
27314 TGTATTAACA
*
27324 CTTTC CCTTC CTTTC CTTTC CTTTC CTTTC CT
1 CTTTC CTTTC CTTTC CTTTC CTTTC CTTTC CT
27356 CCAAACATAG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
5 25 1.00
ACGTcount: A:0.00, C:0.44, G:0.00, T:0.56
Consensus pattern (5 bp):
CTTTC
Found at i:30016 original size:35 final size:35
Alignment explanation
Indices: 29976--30050 Score: 105
Period size: 35 Copynumber: 2.1 Consensus size: 35
29966 ACTAAATTAA
* *
29976 ACGGGGACGAGAAAAATCGTTTATGCTAAACGGGG
1 ACGGGGACGAGAAAAACCATTTATGCTAAACGGGG
* * *
30011 ACGGGGATGAGGAAAACCATTTATGTTAAACGGGG
1 ACGGGGACGAGAAAAACCATTTATGCTAAACGGGG
30046 ACGGG
1 ACGGG
30051 TTTAGTAATC
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
35 35 1.00
ACGTcount: A:0.33, C:0.13, G:0.36, T:0.17
Consensus pattern (35 bp):
ACGGGGACGAGAAAAACCATTTATGCTAAACGGGG
Found at i:30111 original size:2 final size:2
Alignment explanation
Indices: 30104--30203 Score: 72
Period size: 2 Copynumber: 54.0 Consensus size: 2
30094 AAATAATTAT
* * *
30104 TA TA TA TA TA TA TA TA TA -A TA T- TA -A TA AA TT TA AA T- TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* *
30142 AA T- TA -A TA TA TA TA TA TA TA TA TA TA TA -A TA TA TA TT TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
* * *
30181 TA TA TT TA -A TT TA AA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA
30204 CCAGACCCGA
Statistics
Matches: 74, Mismatches: 16, Indels: 16
0.70 0.15 0.15
Matches are distributed among these distances:
1 8 0.11
2 66 0.89
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
TA
Found at i:33147 original size:60 final size:60
Alignment explanation
Indices: 33045--33158 Score: 149
Period size: 60 Copynumber: 1.9 Consensus size: 60
33035 AATAATCAGG
* * *
33045 TGATCATTTTGTAACTTTTAATAGTATAGGGATTTAACAAAGTAACATTCTATAATCGAA
1 TGATCATTTTGTAACTTTCAATAGTATAGAGACTTAACAAAGTAACATTCTATAATCGAA
* * **
33105 TGATCATTTTGTAGCTTTCAATAGT-TGAGAGACTTAATAAAGTAGTATTCTATA
1 TGATCATTTTGTAACTTTCAATAGTAT-AGAGACTTAACAAAGTAACATTCTATA
33159 GTCGGGGGAT
Statistics
Matches: 46, Mismatches: 7, Indels: 2
0.84 0.13 0.04
Matches are distributed among these distances:
59 1 0.02
60 45 0.98
ACGTcount: A:0.36, C:0.10, G:0.15, T:0.39
Consensus pattern (60 bp):
TGATCATTTTGTAACTTTCAATAGTATAGAGACTTAACAAAGTAACATTCTATAATCGAA
Found at i:33170 original size:60 final size:60
Alignment explanation
Indices: 33046--33173 Score: 141
Period size: 60 Copynumber: 2.1 Consensus size: 60
33036 ATAATCAGGT
* * * *
33046 GATCATTTTGTAACTTTTAATAGTATAGGGATTTAACAAAGTAACATTCTATAATCGAAT
1 GATCATTTTGTAACTTTCAATAGTATAGAGACTTAACAAAGTAACATTCTATAATCGAAG
* * ** * **
33106 GATCATTTTGTAGCTTTCAATAGT-TGAGAGACTTAATAAAGTAGTATTCTATAGTCGGGG
1 GATCATTTTGTAACTTTCAATAGTAT-AGAGACTTAACAAAGTAACATTCTATAATCGAAG
33166 GATCATTT
1 GATCATTT
33174 GTATATTTTA
Statistics
Matches: 56, Mismatches: 11, Indels: 2
0.81 0.16 0.03
Matches are distributed among these distances:
59 1 0.02
60 55 0.98
ACGTcount: A:0.34, C:0.10, G:0.18, T:0.38
Consensus pattern (60 bp):
GATCATTTTGTAACTTTCAATAGTATAGAGACTTAACAAAGTAACATTCTATAATCGAAG
Found at i:33270 original size:463 final size:463
Alignment explanation
Indices: 32355--35133 Score: 4848
Period size: 463 Copynumber: 6.0 Consensus size: 463
32345 ATATTAAAAG
32355 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTT-TTTTAAAAAAATAT
1 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTTAAAAAAATAT
* * * *
32419 TGGTATTATGAGCTAAACGTTACTATGTTGATTGTGATGTGATAAAATTAAATCCCAAAATCTCA
66 TGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCTCA
* * *
32484 AATTTTATTTTATCTCATCCATCATATTAACGTCCAACTTAAACAACCACCGATTCTTTAACGGA
131 AATTTTATTTTATCTCAGCCATCATGTTAAC-TCCAACTTAGACAACCACCGATTCTTTAACGGA
* *
32549 AAAATACGAGTTTGGAACATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAGTAGAGGG
195 AAAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAGTAGAGGG
* * *
32614 ATTTAACAAAGTAACATTCTATAATCGAATGACCATTTTGTAGCTTTCAAAAGTTGGGAGACTTA
260 ATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGAGAGACTTA
* * *
32679 ATAAAGCAATACTCTATAGTTGGGGGATCATTTGTATATTTTAAC-TTTTTTAGTACTTGAGATG
325 ATAAAGCAGTACTCTATAGTCGGGGGATCATTTGTATATTTTAACTTTTTTTAGTACTTGAGGTG
*
32743 ATTATAAGGTATTATTTGTTCATAATTTATTTTGTCATCGACAATGTACACATCTTATAGACACA
390 ATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACACA
32808 AATGCTCGA
455 AATGCTCGA
32817 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTTAAAAAAATAT
1 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTTAAAAAAATAT
*
32882 TGGTATTATGAGCTAAATGTTAATATGTTAAATGTGATGTGATAAAATCAAATCCCAAAATCTCA
66 TGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCTCA
*
32947 AATTTTATTTTATCTCAGCCATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGAAA
131 AATTTTATTTTATCTCAGCCATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGGAA
*
33012 AAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAGTATAGGGA
196 AAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAGTAGAGGGA
33077 TTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGAGAGACTTAA
261 TTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGAGAGACTTAA
* *
33142 TAAAGTAGTATTCTATAGTCGGGGGATCATTTGTATATTTTAACTTTTTTTAGTACTTGAGGTGA
326 TAAAGCAGTACTCTATAGTCGGGGGATCATTTGTATATTTTAACTTTTTTTAGTACTTGAGGTGA
33207 TTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACACAA
391 TTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACACAA
33272 ATGCTCGA
456 ATGCTCGA
33280 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTTTAAAAAAATA
1 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTA-TTTTAAAAAAATA
*
33345 TTGGTATTATAAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCTC
65 TTGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCTC
*
33410 AAATTTTATTTTATCTCAGCAATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGGA
130 AAATTTTATTTTATCTCAGCCATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGGA
* * *
33475 AAAAGACGAGTTTGGAGCATAATAAATAATTAGGTGATCATTTTTATAACTTTTAATAATAGAGG
195 AAAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCA-TTTTGTAACTTTTAATAGTAGAGG
*
33540 GA-TT-------T-A-A--CTATAATCGAATGATTATTTTGTAGCTTTCAATAGTTGAGAGACTT
259 GATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGAGAGACTT
* *
33593 AATAAAGCAATACTCTATAGTCGGGGGATCATTTGTATATTTTAACTTTTTTTTAGTACTTAAGG
324 AATAAAGCAGTACTCTATAGTCGGGGGATCATTTGTATATTTTAAC-TTTTTTTAGTACTTGAGG
33658 TGATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACA
388 TGATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACA
33723 CAAATGCTCGA
453 CAAATGCTCGA
*
33734 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTGATTTTAAAAAAATAT
1 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTTAAAAAAATAT
** * *
33799 TGGTATTATGAGCTAAACATTAATATGTTGACTGTGATGTGATAAAATTAAATCCCAAAATCTCA
66 TGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCTCA
*
33864 AATTTTATTTTATCTCAACCATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGGAA
131 AATTTTATTTTATCTCAGCCATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGGAA
*
33929 AAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAGTATAGGGA
196 AAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAGTAGAGGGA
* *
33994 TTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTTAATAGTTGGGAGACTTAA
261 TTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGAGAGACTTAA
* *
34059 TAAAGCAGTATTCTATAGTCGAGGGATCATTTGTATATTTTAACTTTTTTTAGTACTTGAGGTGA
326 TAAAGCAGTACTCTATAGTCGGGGGATCATTTGTATATTTTAACTTTTTTTAGTACTTGAGGTGA
34124 TTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACACAA
391 TTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACACAA
34189 ATGCTCGA
456 ATGCTCGA
*
34197 CTATAAAATGATCACTCCAATTATTCATTATGCTATAAACTCGTTCATTTATTTTAAAAAAAAAT
1 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTT--AAAAAAAT
34262 ATTGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCT
64 ATTGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCT
34327 CAAATTTTATTTTATCTCAGCCATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGG
129 CAAATTTTATTTTATCTCAGCCATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGG
* * * * *
34392 AAAAAGATGAGTTTGGAACATAATAAATAATCAGGTGATTAATTTGTAACTTTTAATAGTATAGG
194 AAAAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAGTAGAGG
* *
34457 GATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTTAATAGTTGGGAGACTT
259 GATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGAGAGACTT
* * *
34522 AATAAAGCAGTATTCTATAGTCGGGGGATCATTTATATATTTTAACTTTTTTTAGTACATGAGGT
324 AATAAAGCAGTACTCTATAGTCGGGGGATCATTTGTATATTTTAACTTTTTTTAGTACTTGAGGT
*
34587 GATTATAAGGTATTATTTGTCCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACAC
389 GATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACAC
34652 AAATGCTCGA
454 AAATGCTCGA
34662 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTTAAAAAAATAT
1 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTTAAAAAAATAT
*
34727 TGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCTTA
66 TGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCTCA
* * *
34792 AATTTTATTTTATCTCAACCATCATGTTAACTCCAACTTAGACAACCATCGATTCTTTAACGAAA
131 AATTTTATTTTATCTCAGCCATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGGAA
* *
34857 AAATACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAGTAGAGGTA
196 AAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAGTAGAGGGA
34922 TTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGAGAGACTTAA
261 TTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGAGAGACTTAA
*
34987 TAAAGCAGTACTCTATAGTCAGGGGATCATTTGTATATTTTAACTTTTTTTAGTACTTGAGGTGA
326 TAAAGCAGTACTCTATAGTCGGGGGATCATTTGTATATTTTAACTTTTTTTAGTACTTGAGGTGA
*
35052 TTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATATACACATCTTATAGACACAA
391 TTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACACAA
35117 ATGCTCGA
456 ATGCTCGA
* *
35125 ATTTAAAAT
1 CTATAAAAT
35134 ATTTAAGAAA
Statistics
Matches: 2208, Mismatches: 90, Indels: 37
0.95 0.04 0.02
Matches are distributed among these distances:
452 23 0.01
453 265 0.12
454 143 0.06
455 1 0.00
456 1 0.00
457 1 0.00
460 1 0.00
461 1 0.00
462 247 0.11
463 787 0.36
464 266 0.12
465 472 0.21
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (463 bp):
CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTTAAAAAAATAT
TGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCTCA
AATTTTATTTTATCTCAGCCATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGGAA
AAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAGTAGAGGGA
TTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGAGAGACTTAA
TAAAGCAGTACTCTATAGTCGGGGGATCATTTGTATATTTTAACTTTTTTTAGTACTTGAGGTGA
TTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACACAA
ATGCTCGA
Found at i:34072 original size:60 final size:60
Alignment explanation
Indices: 33962--34090 Score: 152
Period size: 60 Copynumber: 2.1 Consensus size: 60
33952 AATAATCAGG
* *
33962 TGATCATTTTGTAACTTTTAATAGTATAGGGATTTAACAAAGTAACATTCTATAATCGAA
1 TGATCATTTTGTAACTTTTAATAGTATAGGGACTTAACAAAGCAACATTCTATAATCGAA
* * * ** * *
34022 TGATCATTTTGTAGCTTTTAATAGT-TGGGAGACTTAATAAAGCAGTATTCTATAGTCGAG
1 TGATCATTTTGTAACTTTTAATAGTATAGG-GACTTAACAAAGCAACATTCTATAATCGAA
*
34082 GGATCATTT
1 TGATCATTT
34091 GTATATTTTA
Statistics
Matches: 58, Mismatches: 10, Indels: 2
0.83 0.14 0.03
Matches are distributed among these distances:
59 3 0.05
60 55 0.95
ACGTcount: A:0.33, C:0.10, G:0.18, T:0.39
Consensus pattern (60 bp):
TGATCATTTTGTAACTTTTAATAGTATAGGGACTTAACAAAGCAACATTCTATAATCGAA
Found at i:34940 original size:928 final size:926
Alignment explanation
Indices: 32355--35133 Score: 4904
Period size: 917 Copynumber: 3.0 Consensus size: 926
32345 ATATTAAAAG
32355 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTT-TTTTAAAAAAATAT
1 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTTAAAAAAATAT
* * * *
32419 TGGTATTATGAGCTAAACGTTACTATGTTGATTGTGATGTGATAAAATTAAATCCCAAAATCTCA
66 TGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCTCA
* * *
32484 AATTTTATTTTATCTCATCCATCATATTAACGTCCAACTTAAACAACCACCGATTCTTTAACGGA
131 AATTTTATTTTATCTCAGCCATCATGTTAAC-TCCAACTTAGACAACCACCGATTCTTTAACGGA
*
32549 AAAATACGAGTTTGGAACATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAGTAGAGGG
195 AAAAGACGAGTTTGGAACATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAGTAGAGGG
* *
32614 ATTTAACAAAGTAACATTCTATAATCGAATGACCATTTTGTAGCTTTCAAAAGTTGGGAGACTTA
260 ATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGGGAGACTTA
* *
32679 ATAAAGCAATACTCTATAGTTGGGGGATCATTTGTATATTTTAAC-TTTTTTAGTACTTGAGATG
325 ATAAAGCAATACTCTATAGTCGGGGGATCATTTGTATATTTTAACTTTTTTTAGTACTTGAGGTG
*
32743 ATTATAAGGTATTATTTGTTCATAATTTATTTTGTCATCGACAATGTACACATCTTATAGACACA
390 ATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACACA
32808 AATGCTCGACTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTTA
455 AATGCTCGACTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTTA
*
32873 AAAAAATATTGGTATTATGAGCTAAATGTTAATATGTTAAATGTGATGTGATAAAATCAAATCCC
520 AAAAAATATTGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCC
*
32938 AAAATCTCAAATTTTATTTTATCTCAGCCATCATGTTAACTCCAACTTAGACAACCACCGATTCT
585 AAAATCTCAAATTTTATTTTATCTCAACCATCATGTTAACTCCAACTTAGACAACCACCGATTCT
33003 TTAACGAAAAAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATA
650 TTAACGAAAAAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATA
33068 GTATAGGGATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGA
715 GTATAGGGATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGA
* *
33133 GAGACTTAATAAAGTAGTATTCTATAGTCGGGGGATCATTTGTATATTTTAACTTTTTTTAGTAC
780 GAGACTTAATAAAGCAGTATTCTATAGTCGAGGGATCATTTGTATATTTTAACTTTTTTTAGTAC
33198 TTGAGGTGATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTA
845 TTGAGGTGATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTA
33263 TAGACACAAATGCTCGA
910 TAGACACAAATGCTCGA
33280 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTTTAAAAAAATA
1 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTA-TTTTAAAAAAATA
*
33345 TTGGTATTATAAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCTC
65 TTGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCTC
*
33410 AAATTTTATTTTATCTCAGCAATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGGA
130 AAATTTTATTTTATCTCAGCCATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGGA
* * * *
33475 AAAAGACGAGTTTGGAGCATAATAAATAATTAGGTGATCATTTTTATAACTTTTAATAATAGAGG
195 AAAAGACGAGTTTGGAACATAATAAATAATCAGGTGATCA-TTTTGTAACTTTTAATAGTAGAGG
* *
33540 GA-TT-------T-A-A--CTATAATCGAATGATTATTTTGTAGCTTTCAATAGTTGAGAGACTT
259 GATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGGGAGACTT
*
33593 AATAAAGCAATACTCTATAGTCGGGGGATCATTTGTATATTTTAACTTTTTTTTAGTACTTAAGG
324 AATAAAGCAATACTCTATAGTCGGGGGATCATTTGTATATTTTAAC-TTTTTTTAGTACTTGAGG
33658 TGATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACA
388 TGATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACA
*
33723 CAAATGCTCGACTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTGATTT
453 CAAATGCTCGACTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTT
** * *
33788 TAAAAAAATATTGGTATTATGAGCTAAACATTAATATGTTGACTGTGATGTGATAAAATTAAATC
518 TAAAAAAATATTGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATC
33853 CCAAAATCTCAAATTTTATTTTATCTCAACCATCATGTTAACTCCAACTTAGACAACCACCGATT
583 CCAAAATCTCAAATTTTATTTTATCTCAACCATCATGTTAACTCCAACTTAGACAACCACCGATT
*
33918 CTTTAACGGAAAAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAA
648 CTTTAACGAAAAAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAA
*
33983 TAGTATAGGGATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTTAATAGTT
713 TAGTATAGGGATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTT
*
34048 GGGAGACTTAATAAAGCAGTATTCTATAGTCGAGGGATCATTTGTATATTTTAACTTTTTTTAGT
778 GAGAGACTTAATAAAGCAGTATTCTATAGTCGAGGGATCATTTGTATATTTTAACTTTTTTTAGT
34113 ACTTGAGGTGATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCT
843 ACTTGAGGTGATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCT
34178 TATAGACACAAATGCTCGA
908 TATAGACACAAATGCTCGA
*
34197 CTATAAAATGATCACTCCAATTATTCATTATGCTATAAACTCGTTCATTTATTTTAAAAAAAAAT
1 CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTT--AAAAAAAT
34262 ATTGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCT
64 ATTGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCT
34327 CAAATTTTATTTTATCTCAGCCATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGG
129 CAAATTTTATTTTATCTCAGCCATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGG
* * * *
34392 AAAAAGATGAGTTTGGAACATAATAAATAATCAGGTGATTAATTTGTAACTTTTAATAGTATAGG
194 AAAAAGACGAGTTTGGAACATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAGTAGAGG
*
34457 GATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTTAATAGTTGGGAGACTT
259 GATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGGGAGACTT
* * * *
34522 AATAAAGCAGTATTCTATAGTCGGGGGATCATTTATATATTTTAACTTTTTTTAGTACATGAGGT
324 AATAAAGCAATACTCTATAGTCGGGGGATCATTTGTATATTTTAACTTTTTTTAGTACTTGAGGT
*
34587 GATTATAAGGTATTATTTGTCCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACAC
389 GATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACAC
34652 AAATGCTCGACTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTT
454 AAATGCTCGACTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTT
34717 AAAAAAATATTGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCC
519 AAAAAAATATTGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCC
* *
34782 CAAAATCTTAAATTTTATTTTATCTCAACCATCATGTTAACTCCAACTTAGACAACCATCGATTC
584 CAAAATCTCAAATTTTATTTTATCTCAACCATCATGTTAACTCCAACTTAGACAACCACCGATTC
*
34847 TTTAACGAAAAAATACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAAT
649 TTTAACGAAAAAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAAT
* *
34912 AGTAGAGGTATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTG
714 AGTATAGGGATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTG
*
34977 AGAGACTTAATAAAGCAGTACTCTATAGTC-AGGGGATCATTTGTATATTTTAACTTTTTTTAGT
779 AGAGACTTAATAAAGCAGTATTCTATAGTCGA-GGGATCATTTGTATATTTTAACTTTTTTTAGT
*
35041 ACTTGAGGTGATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATATACACATCT
843 ACTTGAGGTGATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCT
35106 TATAGACACAAATGCTCGA
908 TATAGACACAAATGCTCGA
* *
35125 ATTTAAAAT
1 CTATAAAAT
35134 ATTTAAGAAA
Statistics
Matches: 1763, Mismatches: 71, Indels: 37
0.94 0.04 0.02
Matches are distributed among these distances:
915 87 0.05
916 4 0.00
917 614 0.35
918 176 0.10
919 1 0.00
925 51 0.03
926 72 0.04
927 128 0.07
928 544 0.31
929 86 0.05
ACGTcount: A:0.35, C:0.13, G:0.14, T:0.38
Consensus pattern (926 bp):
CTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTTAAAAAAATAT
TGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCAAAATCTCA
AATTTTATTTTATCTCAGCCATCATGTTAACTCCAACTTAGACAACCACCGATTCTTTAACGGAA
AAAGACGAGTTTGGAACATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAGTAGAGGGA
TTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGGGAGACTTAA
TAAAGCAATACTCTATAGTCGGGGGATCATTTGTATATTTTAACTTTTTTTAGTACTTGAGGTGA
TTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTATAGACACAA
ATGCTCGACTATAAAATGATCACTCCAATTATTCATTATGTTATAAACTCGTTCATTTATTTTAA
AAAAATATTGGTATTATGAGCTAAATGTTAATATGTTGAATGTGATGTGATAAAATCAAATCCCA
AAATCTCAAATTTTATTTTATCTCAACCATCATGTTAACTCCAACTTAGACAACCACCGATTCTT
TAACGAAAAAAGACGAGTTTGGAGCATAATAAATAATCAGGTGATCATTTTGTAACTTTTAATAG
TATAGGGATTTAACAAAGTAACATTCTATAATCGAATGATCATTTTGTAGCTTTCAATAGTTGAG
AGACTTAATAAAGCAGTATTCTATAGTCGAGGGATCATTTGTATATTTTAACTTTTTTTAGTACT
TGAGGTGATTATAAGGTATTATTTGTTCATAATTTCTTTTGTCATCGACAATGTACACATCTTAT
AGACACAAATGCTCGA
Found at i:43553 original size:24 final size:24
Alignment explanation
Indices: 43520--43572 Score: 81
Period size: 24 Copynumber: 2.2 Consensus size: 24
43510 GGAGTGATGT
43520 AATT-TGTTCTTACATCTCCATTG
1 AATTGTGTTCTTACATCTCCATTG
* *
43543 ATTTGTGTTCTTACATCTCTATTG
1 AATTGTGTTCTTACATCTCCATTG
43567 AATTGT
1 AATTGT
43573 CTGAGGCCAT
Statistics
Matches: 26, Mismatches: 3, Indels: 1
0.87 0.10 0.03
Matches are distributed among these distances:
23 3 0.12
24 23 0.88
ACGTcount: A:0.21, C:0.17, G:0.11, T:0.51
Consensus pattern (24 bp):
AATTGTGTTCTTACATCTCCATTG
Found at i:44876 original size:32 final size:32
Alignment explanation
Indices: 44838--44906 Score: 93
Period size: 32 Copynumber: 2.2 Consensus size: 32
44828 CTCGTGTTCA
* ** *
44838 TTAAGAAAATTTGTGGCTCGACTCGTTGCTCG
1 TTAAGAAAATTTGTGACTCGACTAATTGCTAG
*
44870 TTAAGAAAATTTGTTACTCGACTAATTGCTAG
1 TTAAGAAAATTTGTGACTCGACTAATTGCTAG
44902 TTAAG
1 TTAAG
44907 CTCGTTACTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.29, C:0.14, G:0.20, T:0.36
Consensus pattern (32 bp):
TTAAGAAAATTTGTGACTCGACTAATTGCTAG
Found at i:47141 original size:45 final size:45
Alignment explanation
Indices: 47092--47264 Score: 292
Period size: 45 Copynumber: 3.8 Consensus size: 45
47082 GCTTCAACTT
*
47092 GTTAGGCATGTCATACATGGATCATGTGAGATGAACTACCATAAA
1 GTTAGACATGTCATACATGGATCATGTGAGATGAACTACCATAAA
47137 GTTAGACATGTCATACATGGATCATGTGAGATGAACTACCATAAA
1 GTTAGACATGTCATACATGGATCATGTGAGATGAACTACCATAAA
*
47182 GTTAGATATGTCATACATGGATCATGTGAGATGAACTACCATAAA
1 GTTAGACATGTCATACATGGATCATGTGAGATGAACTACCATAAA
* * * *
47227 GTTAGACATGTCATACATAGACCACGTGAGATAAACTA
1 GTTAGACATGTCATACATGGATCATGTGAGATGAACTA
47265 TCATGCCCCT
Statistics
Matches: 121, Mismatches: 7, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 121 1.00
ACGTcount: A:0.38, C:0.16, G:0.20, T:0.27
Consensus pattern (45 bp):
GTTAGACATGTCATACATGGATCATGTGAGATGAACTACCATAAA
Found at i:51215 original size:28 final size:29
Alignment explanation
Indices: 51158--51218 Score: 97
Period size: 28 Copynumber: 2.1 Consensus size: 29
51148 TTCTACAGTA
* *
51158 ACCTTGGAGGTCGCCATGGCATCCGGGCG
1 ACCTTGGAGGTCGACATGGCATCCGAGCG
51187 ACCTTGGAGGTC-ACATGGCATCCGAGCG
1 ACCTTGGAGGTCGACATGGCATCCGAGCG
51215 ACCT
1 ACCT
51219 GTGTGGTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
28 18 0.60
29 12 0.40
ACGTcount: A:0.18, C:0.31, G:0.33, T:0.18
Consensus pattern (29 bp):
ACCTTGGAGGTCGACATGGCATCCGAGCG
Found at i:51303 original size:20 final size:20
Alignment explanation
Indices: 51278--51349 Score: 58
Period size: 20 Copynumber: 3.4 Consensus size: 20
51268 GTATTGGAGC
51278 ATGCATGGGGGAGTTGTGGG
1 ATGCATGGGGGAGTTGTGGG
*
51298 ATGCATGCTGTGCATGG-GATGTGGG
1 ATGCATG--G-G---GGAGTTGTGGG
51323 AATGCAT-GGGGAGTTGTGGG
1 -ATGCATGGGGGAGTTGTGGG
51343 ATGCATG
1 ATGCATG
51350 TTGTGCATGG
Statistics
Matches: 41, Mismatches: 2, Indels: 18
0.67 0.03 0.30
Matches are distributed among these distances:
19 8 0.20
20 14 0.34
22 2 0.05
23 2 0.05
25 7 0.17
26 8 0.20
ACGTcount: A:0.18, C:0.08, G:0.47, T:0.26
Consensus pattern (20 bp):
ATGCATGGGGGAGTTGTGGG
Found at i:51339 original size:45 final size:46
Alignment explanation
Indices: 51278--51369 Score: 159
Period size: 45 Copynumber: 2.0 Consensus size: 46
51268 GTATTGGAGC
*
51278 ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGATGTGGGA
1 ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
*
51324 ATGCAT-GGGGAGTTGTGGGATGCATGTTGTGCATGGGACGTGGGA
1 ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
51369 A
1 A
51370 CTGTGCATGG
Statistics
Matches: 44, Mismatches: 2, Indels: 1
0.94 0.04 0.02
Matches are distributed among these distances:
45 38 0.86
46 6 0.14
ACGTcount: A:0.18, C:0.09, G:0.47, T:0.26
Consensus pattern (46 bp):
ATGCATGGGGGAGTTGTGGGATGCATGCTGTGCATGGGACGTGGGA
Found at i:51896 original size:21 final size:21
Alignment explanation
Indices: 51860--51908 Score: 64
Period size: 21 Copynumber: 2.3 Consensus size: 21
51850 ACTAAAATCT
51860 AGTTAATTAGTTTGTTAGTATA
1 AGTT-ATTAGTTTGTTAGTATA
*
51882 A-TTATTAGTTTTGTTAGTTTA
1 AGTTATTAG-TTTGTTAGTATA
51903 AGTTAT
1 AGTTAT
51909 ATTATATTAG
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 5 0.21
21 14 0.58
22 5 0.21
ACGTcount: A:0.29, C:0.00, G:0.16, T:0.55
Consensus pattern (21 bp):
AGTTATTAGTTTGTTAGTATA
Found at i:51900 original size:29 final size:28
Alignment explanation
Indices: 51866--51922 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 28
51856 ATCTAGTTAA
51866 TTAGTTT-GTTAGTATAATTATTAGTTTTG
1 TTAGTTTAGTTA-TATAA-TATTAGTTTTG
*
51895 TTAGTTTAAGTTATATTATATTAGTTTT
1 TTAGTTT-AGTTATATAATATTAGTTTT
51923 AGTTTAAGTT
Statistics
Matches: 25, Mismatches: 1, Indels: 4
0.83 0.03 0.13
Matches are distributed among these distances:
29 17 0.68
30 4 0.16
31 4 0.16
ACGTcount: A:0.26, C:0.00, G:0.14, T:0.60
Consensus pattern (28 bp):
TTAGTTTAGTTATATAATATTAGTTTTG
Found at i:51947 original size:32 final size:29
Alignment explanation
Indices: 51884--51944 Score: 92
Period size: 26 Copynumber: 2.2 Consensus size: 29
51874 TTAGTATAAT
51884 TATTAGTTTTGTTAGTTTAAGTTATATTA
1 TATTAGTTTTGTTAGTTTAAGTTATATTA
51913 TATTAG--TT-TTAGTTTAAGTTATAATTA
1 TATTAGTTTTGTTAGTTTAAGTTAT-ATTA
51940 TATTA
1 TATTA
51945 TATAAAAAAT
Statistics
Matches: 31, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
26 14 0.45
27 11 0.35
29 6 0.19
ACGTcount: A:0.31, C:0.00, G:0.11, T:0.57
Consensus pattern (29 bp):
TATTAGTTTTGTTAGTTTAAGTTATATTA
Found at i:52432 original size:16 final size:16
Alignment explanation
Indices: 52411--52467 Score: 51
Period size: 16 Copynumber: 3.4 Consensus size: 16
52401 GATAATTTCC
52411 GTTTAAAAAATATTGT
1 GTTTAAAAAATATTGT
* *
52427 GTTTAAAATATTTAGTGTT
1 GTTTAAAA-A-ATATTG-T
* *
52446 GTTTTAAAAATATTTT
1 GTTTAAAAAATATTGT
52462 GTTTAA
1 GTTTAA
52468 TTTACATTGT
Statistics
Matches: 31, Mismatches: 7, Indels: 6
0.70 0.16 0.14
Matches are distributed among these distances:
16 14 0.45
17 4 0.13
18 5 0.16
19 8 0.26
ACGTcount: A:0.37, C:0.00, G:0.12, T:0.51
Consensus pattern (16 bp):
GTTTAAAAAATATTGT
Found at i:52756 original size:26 final size:25
Alignment explanation
Indices: 52727--52785 Score: 66
Period size: 26 Copynumber: 2.3 Consensus size: 25
52717 AAATCATATT
*
52727 ATTATTAAATCATTAAATATCAAATC
1 ATTATTAAAT-AGTAAATATCAAATC
*
52753 ATTAGATT-AATAGTAATTATCAAATC
1 ATT--ATTAAATAGTAAATATCAAATC
52779 ATTATTA
1 ATTATTA
52786 GGTTTATTAG
Statistics
Matches: 28, Mismatches: 2, Indels: 7
0.76 0.05 0.19
Matches are distributed among these distances:
24 3 0.11
26 19 0.68
27 3 0.11
28 3 0.11
ACGTcount: A:0.47, C:0.08, G:0.03, T:0.41
Consensus pattern (25 bp):
ATTATTAAATAGTAAATATCAAATC
Done.