Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01004565.1 Hibiscus syriacus cultivar Beakdansim tig00010147_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: 53676
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Found at i:7760 original size:133 final size:129
Alignment explanation
Indices: 7550--8176 Score: 425
Period size: 133 Copynumber: 4.8 Consensus size: 129
7540 ACTTCGCTGC
* * * * *
7550 TCTTCAGAGAAGATTGAACTGAACTTGATTTGCTTCACTGCTCTTCAGTAAGACCAAATCTAAAA
1 TCTTCAGAGAAGATTGAACCGAA-ATGATTTGCTTCACTGCACTTCAGGAAGACCAAATCTGAAA
*
7615 GAAAGA--AGATATGCTCCACTACTCTTTAGGGGAGATCGAACTCG-TAGAATTGTGATACACTT
65 G-AAGATTA-ATATGCTCCACTACTCTTTAGGGGAGATC-AACTCGATA-AATT-TGATCCACTT
7677 TATTAT
125 T-TTAT
* * *
7683 TCTTCAGAGAAGATTTAACCGAAGTCGATTGGCTTCACTGCACTTCAGGAAGACCAAATCTGAAA
1 TCTTCAGAGAAGATTGAACCGAAAT-GATTTGCTTCACTGCACTTCAGGAAGACCAAATCTGAAA
* * * * *
7748 GAAGATTAATATGTTCCACTACTCTTTCGAGGAGATC-A---GATACATATTGATCCA-TTTTCG
65 GAAGATTAATATGCTCCACTACTCTTTAGGGGAGATCAACTCGATAAAT-TTGATCCACTTTT-T
7808 AT
128 AT
* * ** * *
7810 GCTCTTTA-AGGAAGATTAAAATAGAAATGATTTGCTTTACTGCTA-TTCTGGAAGACCAAATCT
1 --TCTTCAGA-GAAGATT-GAACCGAAATGATTTGCTTCACTGC-ACTTCAGGAAGACCAAATCT
* * * *
7873 GAGAGAA-ATATAATTTACTCCATTACTCTTTAGGGGAGATCAGACTCGATAAGATTTTGATCCA
61 GAAAGAAGAT-TAATATGCTCCACTACTCTTTAGGGGAGATCA-ACTCGATAA-A-TTTGATCCA
*
7937 CTTTGTTAC
122 CTTT-TTAT
* * * * * *
7946 TCTTCAGGGAAGATTGAATCGAACATGATTTACTTCACTTCTCTTTAGGAAGACCAAATCTGAAA
1 TCTTCAGAGAAGATTGAACCGAA-ATGATTTGCTTCACTGCACTTCAGGAAGACCAAATCTGAAA
* * * * * * * * *
8011 GAAAAATAATATGCTCCACTAATCTTTAGTGGAGATAAGACTTGAGAAAAATTGATCCACTTCGC
65 GAAGATTAATATGCTCCACTACTCTTTAGGGGAGATCA-ACTCGA-TAAATTTGATCCACTT--T
**
8076 TGCT
126 TTAT
* * * * * * * * *
8080 T-TTCAGGGAAGATTGAATCGAATGTGATTTGCTTCGCTGCTCTTCAAGAATACCAATTTTGAAA
1 TCTTCAGAGAAGATTGAACCGAA-ATGATTTGCTTCACTGCACTTCAGGAAGACCAAATCTGAAA
* * * *
8144 G-ATATAGAATCTTCTCCACTACTCTTTAGGGGA
65 GAAGAT-TAATATGCTCCACTACTCTTTAGGGGA
8177 AACTAGATCT
Statistics
Matches: 392, Mismatches: 73, Indels: 58
0.75 0.14 0.11
Matches are distributed among these distances:
126 1 0.00
127 5 0.01
128 12 0.03
129 76 0.19
130 7 0.02
131 2 0.01
132 7 0.02
133 176 0.45
134 88 0.22
135 12 0.03
136 5 0.01
137 1 0.00
ACGTcount: A:0.33, C:0.18, G:0.18, T:0.32
Consensus pattern (129 bp):
TCTTCAGAGAAGATTGAACCGAAATGATTTGCTTCACTGCACTTCAGGAAGACCAAATCTGAAAG
AAGATTAATATGCTCCACTACTCTTTAGGGGAGATCAACTCGATAAATTTGATCCACTTTTTAT
Found at i:9211 original size:45 final size:45
Alignment explanation
Indices: 8905--9221 Score: 234
Period size: 45 Copynumber: 7.1 Consensus size: 45
8895 GTTTAGAATG
* * * * * *
8905 ACATCACTAAAAGGTTAACTCCTTTTTC-TGAGAAAGTCAAGAATC
1 ACATCACTAAAAGATTGACTCC-TCTTCACGAGAAAGTCAATAATA
* * * * *
8950 ACAAT-ACTAAAAGATTTACTCCCCTTCGCAAGAAAGTCAAGAATA
1 AC-ATCACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAATAATA
* * * * * *
8995 ACATAACTAAAAGTTTGACTTCTATTCACGA-TAAGT--A-AAGA
1 ACATCACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAATAATA
* * * ** * * *
9036 ACAACACCAAAAGATCGACTCCTCTTCGTGAGAAAGTTAAGGAA-G
1 ACATCACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAA-TAATA
* * * **
9081 ACACCACTAAAACATTGATTCCTCTTCACGAGAAAGTCAAGGATA
1 ACATCACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAATAATA
*
9126 ACATCACTAAAAGATTGACTCCCCTTCACGAGAAAGTCAATAATA
1 ACATCACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAATAATA
* * * * *
9171 ACATCATTAAAAGTTTTACTTCTCTTCACGAGAAAGTCAATAACA
1 ACATCACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAATAATA
9216 ACATCA
1 ACATCA
9222 AAAGAACAAC
Statistics
Matches: 214, Mismatches: 49, Indels: 18
0.76 0.17 0.06
Matches are distributed among these distances:
41 25 0.12
42 5 0.02
44 12 0.06
45 168 0.79
46 4 0.02
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.25
Consensus pattern (45 bp):
ACATCACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAATAATA
Found at i:9219 original size:90 final size:90
Alignment explanation
Indices: 8899--9221 Score: 295
Period size: 90 Copynumber: 3.6 Consensus size: 90
8889 AGTCAAGTTT
* * * * * *
8899 AGAATGACATCACTAAAAGGTTAACTCCTTTTTC-TGAGAAAGTCAAGAATC-ACAAT-ACTAAA
1 AGAATAACATCACTAAAAGTTTGACTTC-TCTTCACGAGAAAGTCAAGAA-CAAC-ATCACTAAA
* *
8961 AGATTTACTCCCCTTCGCAAGAAAGTCA
63 AGATTGACTCCCCTTCGCGAGAAAGTCA
* * * *
8989 AGAATAACATAACTAAAAGTTTGACTTCTATTCACGA-TAAGTAAAGAACAACA-C-C-AAAAGA
1 AGAATAACATCACTAAAAGTTTGACTTCTCTTCACGAGAAAGTCAAGAACAACATCACTAAAAGA
* * * *
9050 TCGACTCCTCTTCGTGAGAAAGTTA
66 TTGACTCCCCTTCGCGAGAAAGTCA
* * ** * *
9075 AGGAA-GACACCACTAAAACATTGA-TTCCTCTTCACGAGAAAGTCAAGGATAACATCACTAAAA
1 A-GAATAACATCACTAAAAGTTTGACTT-CTCTTCACGAGAAAGTCAAGAACAACATCACTAAAA
*
9138 GATTGACTCCCCTTCACGAGAAAGTCA
64 GATTGACTCCCCTTCGCGAGAAAGTCA
* * * *
9165 ATAATAACATCATTAAAAGTTTTACTTCTCTTCACGAGAAAGTCAATAACAACATCA
1 AGAATAACATCACTAAAAGTTTGACTTCTCTTCACGAGAAAGTCAAGAACAACATCA
9222 AAAGAACAAC
Statistics
Matches: 182, Mismatches: 40, Indels: 22
0.75 0.16 0.09
Matches are distributed among these distances:
85 2 0.01
86 49 0.27
87 16 0.09
88 3 0.02
89 18 0.10
90 92 0.51
91 2 0.01
ACGTcount: A:0.41, C:0.21, G:0.13, T:0.24
Consensus pattern (90 bp):
AGAATAACATCACTAAAAGTTTGACTTCTCTTCACGAGAAAGTCAAGAACAACATCACTAAAAGA
TTGACTCCCCTTCGCGAGAAAGTCA
Found at i:9376 original size:45 final size:45
Alignment explanation
Indices: 9320--9413 Score: 125
Period size: 45 Copynumber: 2.1 Consensus size: 45
9310 AGTCAAGGAA
* *
9320 AACAACACTAAATGGTTGAATTCTCTTCACGAGAAAGTAAAGAAT
1 AACAACACTAAAAGGTTGAATTCTCTTCACGAGAAAGTAAAGAAC
* * * * *
9365 AACATCACTAAAAGGTTGATTTTTCTTCATGAGAAAGTGAAGAAC
1 AACAACACTAAAAGGTTGAATTCTCTTCACGAGAAAGTAAAGAAC
9410 AACA
1 AACA
9414 CTGTCTCTTC
Statistics
Matches: 42, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.44, C:0.15, G:0.16, T:0.26
Consensus pattern (45 bp):
AACAACACTAAAAGGTTGAATTCTCTTCACGAGAAAGTAAAGAAC
Found at i:9523 original size:45 final size:45
Alignment explanation
Indices: 9417--9746 Score: 261
Period size: 45 Copynumber: 7.5 Consensus size: 45
9407 AACAACACTG
*
9417 TCTCTTCATGAGAAAGTCAA-GAAGGACAACAAC-AAAAGATCGACT
1 TCTCTTCATGAGAAAGTCAAGGAA-GACAAC-ACTAAAAGATTGACT
* * ** *
9462 ACACTTTGTGAGAAAGTCAAGGAAGACAACACTAAAATATTGACT
1 TCTCTTCATGAGAAAGTCAAGGAAGACAACACTAAAAGATTGACT
* * * * * *
9507 CCTTTTCATGATAAAGTCAA-GAATAACATCACGAAAATG-TTGACT
1 TCTCTTCATGAGAAAGTCAAGGAA-GACAACACTAAAA-GATTGACT
* * * *
9552 TCTCTTCACGAGAAAGTCAA-G-A-ATAACACCAAAAGATTGATT
1 TCTCTTCATGAGAAAGTCAAGGAAGACAACACTAAAAGATTGACT
*
9594 TCTCTTCGTGAGAAAGTCAAGGAAGACAACACTAAAAGATTGAC-
1 TCTCTTCATGAGAAAGTCAAGGAAGACAACACTAAAAGATTGACT
* * *
9638 TCTTCTTCACT-AGAAAGTCAAGAAAGATAACACTTAAAGATTGACT
1 TC-TCTTCA-TGAGAAAGTCAAGGAAGACAACACTAAAAGATTGACT
* * * * * *
9684 TATCCTCATGAGAAAGTCAA-G-A-ATAATAGTAAAAAATTGACT
1 TCTCTTCATGAGAAAGTCAAGGAAGACAACACTAAAAGATTGACT
* * *
9726 CCTCTTTATGAGAGAGTCAAG
1 TCTCTTCATGAGAAAGTCAAG
9747 TTAAAGCTTC
Statistics
Matches: 227, Mismatches: 45, Indels: 28
0.76 0.15 0.09
Matches are distributed among these distances:
41 1 0.00
42 63 0.28
43 2 0.01
44 10 0.04
45 146 0.64
46 5 0.02
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.24
Consensus pattern (45 bp):
TCTCTTCATGAGAAAGTCAAGGAAGACAACACTAAAAGATTGACT
Found at i:9657 original size:132 final size:132
Alignment explanation
Indices: 9417--9709 Score: 351
Period size: 132 Copynumber: 2.2 Consensus size: 132
9407 AACAACACTG
* *
9417 TCTCTTCATGAGAAAGTCAAGAAGGACAACAACAAAAGATCGACTACACTTTGTGAGAAAGTCAA
1 TCTCTTCATGAGAAAGTCAAG-A--ATAACAACAAAAGATCGACTACACTTCGTGAGAAAGTCAA
* * *
9482 GGAAGACAACACTAAAATATTGACTCCTTTTCATGATAAAGTCAAGAATA-ACATCACGAAAATG
63 GGAAGACAACACTAAAAGATTGACTCCTTTTCATGAGAAAGTCAAGAA-AGACAACACGAAAA-G
9546 -TTGACT
126 ATTGACT
* * * * * *
9552 TCTCTTCACGAGAAAGTCAAGAATAACACCAAAAGATTGATTTCTCTTCGTGAGAAAGTCAAGGA
1 TCTCTTCATGAGAAAGTCAAGAATAACAACAAAAGATCGACTACACTTCGTGAGAAAGTCAAGGA
* **
9617 AGACAACACTAAAAGATTGACT-CTTCTTCACT-AGAAAGTCAAGAAAGATAACACTTAAAGATT
66 AGACAACACTAAAAGATTGACTCCTT-TTCA-TGAGAAAGTCAAGAAAGACAACACGAAAAGATT
9680 GACT
129 GACT
* *
9684 TATCCTCATGAGAAAGTCAAGAATAA
1 TCTCTTCATGAGAAAGTCAAGAATAA
9710 TAGTAAAAAA
Statistics
Matches: 137, Mismatches: 17, Indels: 11
0.83 0.10 0.07
Matches are distributed among these distances:
131 5 0.04
132 110 0.80
133 1 0.01
134 1 0.01
135 20 0.15
ACGTcount: A:0.43, C:0.18, G:0.16, T:0.24
Consensus pattern (132 bp):
TCTCTTCATGAGAAAGTCAAGAATAACAACAAAAGATCGACTACACTTCGTGAGAAAGTCAAGGA
AGACAACACTAAAAGATTGACTCCTTTTCATGAGAAAGTCAAGAAAGACAACACGAAAAGATTGA
CT
Found at i:9717 original size:87 final size:86
Alignment explanation
Indices: 9471--9746 Score: 238
Period size: 87 Copynumber: 3.1 Consensus size: 86
9461 TACACTTTGT
* * * * *
9471 GAGAAAGTCAAGGAAGACAACACTAAAATATTGACTCCTTTTCATGATAAAGTCAAGAATAACAT
1 GAGAAAGTCAA-GAAGATAACACTAAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAAT-A-AT
9536 CACG-AAAATG-TTGACT-TCTCTTCAC
63 -A-GTAAAA-GATTGACTCT-TCTTCAC
* * * * *
9561 GAGAAAGTCAAG-A-ATAACACCAAAAGATTGATTTCTCTTCGTGAGAAAGTCAAGGAAGACAAC
1 GAGAAAGTCAAGAAGATAACACTAAAAGATTGACTTCTCTTCATGAGAAAGTCAA-G-A-ATAAT
*
9624 ACTAAAAGATTGACTCTTCTTCAC
63 AGTAAAAGATTGACTCTTCTTCAC
* * * *
9648 TAGAAAGTCAAGAAAGATAACACTTAAAGATTGACTTATCCTCATGAGAAAGTCAAGAATAATAG
1 GAGAAAGTCAAG-AAGATAACACTAAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATAATAG
* * * *
9713 TAAAAAATTGACTCCTCTTTAT
65 TAAAAGATTGACTCTTCTTCAC
*
9735 GAGAGAGTCAAG
1 GAGAAAGTCAAG
9747 TTAAAGCTTC
Statistics
Matches: 150, Mismatches: 27, Indels: 21
0.76 0.14 0.11
Matches are distributed among these distances:
86 1 0.01
87 93 0.62
88 5 0.03
89 5 0.03
90 46 0.31
ACGTcount: A:0.42, C:0.17, G:0.16, T:0.25
Consensus pattern (86 bp):
GAGAAAGTCAAGAAGATAACACTAAAAGATTGACTTCTCTTCATGAGAAAGTCAAGAATAATAGT
AAAAGATTGACTCTTCTTCAC
Found at i:9723 original size:132 final size:132
Alignment explanation
Indices: 9469--9746 Score: 330
Period size: 132 Copynumber: 2.1 Consensus size: 132
9459 ACTACACTTT
* *
9469 GTGAGAAAGTCAAGGAAGACAACACTAAAATATTGACTCCTTTTCATGATAAAGTCAAGAATAAC
1 GTGAGAAAGTCAAGGAAGACAACACTAAAAGATTGACTCCTTTTCATGAGAAAGTCAAGAATAAC
* * * * * *
9534 ATCACGAAAATGTTGACTTCTCTTCACGAGAAAGTCAAGAATAACACCAAAAGATTGATTTCTCT
66 AACACGAAAATGTTGACTTATCCTCACGAGAAAGTCAAGAATAACACCAAAAAATTGACTCCTCT
9599 TC
131 TC
9601 GTGAGAAAGTCAAGGAAGACAACACTAAAAGATTGACT-CTTCTTCACT-AGAAAGTCAAGAA-A
1 GTGAGAAAGTCAAGGAAGACAACACTAAAAGATTGACTCCTT-TTCA-TGAGAAAGTCAAGAATA
* ** * * **
9663 GATAACACTTAAA-GATTGACTTATCCTCATGAGAAAGTCAAGAATAATAGTAAAAAATTGACTC
64 -ACAACACGAAAATG-TTGACTTATCCTCACGAGAAAGTCAAGAATAACACCAAAAAATTGACTC
*
9727 CTCTTT
127 CTCTTC
* *
9733 ATGAGAGAGTCAAG
1 GTGAGAAAGTCAAG
9747 TTAAAGCTTC
Statistics
Matches: 124, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
131 5 0.04
132 118 0.95
133 1 0.01
ACGTcount: A:0.42, C:0.17, G:0.17, T:0.25
Consensus pattern (132 bp):
GTGAGAAAGTCAAGGAAGACAACACTAAAAGATTGACTCCTTTTCATGAGAAAGTCAAGAATAAC
AACACGAAAATGTTGACTTATCCTCACGAGAAAGTCAAGAATAACACCAAAAAATTGACTCCTCT
TC
Found at i:12457 original size:3 final size:3
Alignment explanation
Indices: 12449--12519 Score: 142
Period size: 3 Copynumber: 23.7 Consensus size: 3
12439 TGTATAATCT
12449 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
12497 ATA ATA ATA ATA ATA ATA ATA AT
1 ATA ATA ATA ATA ATA ATA ATA AT
12520 TTATTAACCT
Statistics
Matches: 68, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 68 1.00
ACGTcount: A:0.66, C:0.00, G:0.00, T:0.34
Consensus pattern (3 bp):
ATA
Found at i:15549 original size:5 final size:5
Alignment explanation
Indices: 15539--15567 Score: 58
Period size: 5 Copynumber: 5.8 Consensus size: 5
15529 ATGAAAATGC
15539 AATAA AATAA AATAA AATAA AATAA AATA
1 AATAA AATAA AATAA AATAA AATAA AATA
15568 GACACGTGAC
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 24 1.00
ACGTcount: A:0.79, C:0.00, G:0.00, T:0.21
Consensus pattern (5 bp):
AATAA
Found at i:17509 original size:2 final size:2
Alignment explanation
Indices: 17502--17530 Score: 58
Period size: 2 Copynumber: 14.5 Consensus size: 2
17492 CACATATCTT
17502 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 T
17531 TCTAAAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 27 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:23033 original size:132 final size:132
Alignment explanation
Indices: 22248--23054 Score: 672
Period size: 132 Copynumber: 6.1 Consensus size: 132
22238 GATCTGTTTC
* * *
22248 ACTCTTTCAGGTA-ATCAGA-TCTAGAAAATTTTGATTCACTTCGCTGCTCTTCAGGGAAGACTG
1 ACTCTTT-AGGGAGATCAGACTC-AGAAAATTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTG
* * * * * * * * *
22311 GACCGAACTTGATTTGCTTCAG-TTCTCTTCAAGAAGACTAAATCT-AAAGAAAGAGGATATGCT
64 AATCGAACGTGATTTGCTTC-GCTGCTCTTCAGGAAGACCAAATTTGAAAGAAAAAGAATATGCT
22374 CCACT
128 CCACT
* * * * * *
22379 ATTCTTTAGGGTAGATCAGACTC-GTAGAATTGTGTTCCACTTCACTGCTCTTCAGAGAAGATTG
1 ACTCTTTAGGG-AGATCAGACTCAG-AAAATTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTG
* * ** * * * * ** ***
22443 AATCGAA-GTCGATTAGATTCATTGCTCTTAAGGAAGACCAAATCTAAAAGAAGATTAATCCCCT
64 AATCGAACGT-GATTTGCTTCGCTGCTCTTCAGGAAGACCAAATTTGAAAGAAAAAGAATATGCT
22507 CCACT
128 CCACT
* * *** *
22512 ACTCTTTATAGGAGATCA-A-ACACTTAATTTTGATCCACTTCAG-TGCTCTTCGGGGAAGATTG
1 ACTCTTTA-GGGAGATCAGACTCAGAAAATTTTGATCCACTTC-GCTGCTCTTCAGGGAAGATTG
* * * * *
22574 AATTTGGAA-ATGATTTGCTTCACTGCTCTTCAGGAAGACCAAA-TCGAAA-AAAATATAATATG
64 AA--TCGAACGTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATTTGAAAGAAAA-AGAATATG
* *
22636 CTCTATT
126 CTCCACT
* * * *
22643 ACTCTTTAGAGAATATCAGACTCGAGAAAATTTTGATCCACTTTGATGCTCTTCAGGGAAGATTG
1 ACTCTTTAG-GGAGATCAGACTC-AGAAAATTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTG
* * * * *
22708 AATCGAACATTATTCT-CTTCGCTACTCTTCAGGAAGACCAAATTTGAAAGAAGAACAATATGCT
64 AATCGAACGTGATT-TGCTTCGCTGCTCTTCAGGAAGACCAAATTTGAAAGAAAAAGAATATGCT
22772 CCACT
128 CCACT
* * * * * *
22777 ACGCTCTAGGGGAGATCAAACTCGAGAAAATTTTGATCCACTTTGCTTCTCTTCAAGGAAGATTG
1 ACTCTTTA-GGGAGATCAGACTC-AGAAAATTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTG
* * * * * * * *
22842 AATAGAACGTGATTTGCTTCGTTGCACTTCAGGAAAAACAAATATGAAAGAAGAAGAAT-TTCTC
64 AATCGAACGTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATTTGAAAGAAAAAGAATATGCTC
*
22906 AACT
129 CACT
*
22910 ACTCTTTAGGGAGATCAGACTCAAGAAAATTTTGATCCACTTCGCTGCTTTTCAGGGAAGATTGA
1 ACTCTTTAGGGAGATCAGACTC-AGAAAATTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGA
* * *
22975 ATTGCACGTGATTTGCTTCGCTGCTCTTCAGGAAGACCAATTTTGAAAGAAAAAGAAT-TCGCTC
65 ATCGAACGTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATTTGAAAGAAAAAGAATAT-GCTC
*
23039 CATT
129 CACT
* *
23043 GCCCTTTAGGGA
1 ACTCTTTAGGGA
23055 AACCAGATCT
Statistics
Matches: 537, Mismatches: 114, Indels: 48
0.77 0.16 0.07
Matches are distributed among these distances:
130 6 0.01
131 69 0.13
132 205 0.38
133 95 0.18
134 158 0.29
135 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.18, T:0.30
Consensus pattern (132 bp):
ACTCTTTAGGGAGATCAGACTCAGAAAATTTTGATCCACTTCGCTGCTCTTCAGGGAAGATTGAA
TCGAACGTGATTTGCTTCGCTGCTCTTCAGGAAGACCAAATTTGAAAGAAAAAGAATATGCTCCA
CT
Found at i:23865 original size:45 final size:44
Alignment explanation
Indices: 23816--24490 Score: 427
Period size: 45 Copynumber: 15.2 Consensus size: 44
23806 CATTTTTCCA
* * * **
23816 AGAAAATCAAGAATCATAACACTAAAAGATTGACTCCCCTTCTGG
1 AGAAAGTCAAGAA-CACAACACTAAAAGATTGACTCCTCTTCACG
* * * * *
23861 AGAAAGTCGAGAATAACATCACTAAAAGGTTGACTTCTCTTCACG
1 AGAAAGTCAAGAA-CACAACACTAAAAGATTGACTCCTCTTCACG
* * * *
23906 AGAAAGACAAG-A-ACAACACCAAAAGATCGACTCCTCTTCGCG
1 AGAAAGTCAAGAACACAACACTAAAAGATTGACTCCTCTTCACG
* * **
23948 AGAAAGTCAAGGAACACAACACTAAAAAATTAACTCCTCTTCATA
1 AGAAAGTCAA-GAACACAACACTAAAAGATTGACTCCTCTTCACG
* * * *
23993 AGAAAGTCAAGGATA-ACATCACTAAAAGGTTTACTTCTCTTCACG
1 AGAAAGTCAA-GA-ACACAACACTAAAAGATTGACTCCTCTTCACG
* * *
24038 AGAAAGTCAAG-A-ACAACACCAAAAGATTGACTCCTCTCCGCG
1 AGAAAGTCAAGAACACAACACTAAAAGATTGACTCCTCTTCACG
* * * *
24080 AGAAAGTCAAGGATA-ACATCACTAAAAGGTTTACTTCTCTTCACG
1 AGAAAGTCAA-GA-ACACAACACTAAAAGATTGACTCCTCTTCACG
* * * * * *
24125 AGAAAGTTAATAATAACATCACTAAAAGGTTGACTTCTCTTCACG
1 AGAAAGTCAAGAA-CACAACACTAAAAGATTGACTCCTCTTCACG
** * * * **
24170 AGAAAGTCAATGAGGACATCA-AAAAATGATCGACTCCTCTTCGTG
1 AGAAAGTCAA-GAACACAACACTAAAA-GATTGACTCCTCTTCACG
* * * *
24215 AGAAAGTCAAGGAAGACAACACTAAAATATTGATTCATCTTCACG
1 AGAAAGTCAA-GAACACAACACTAAAAGATTGACTCCTCTTCACG
* * * * ** * *
24260 AGAAAATAAAAAATAACGTCACTAAAAGGTTGACTTCTCTTCACG
1 AGAAAGTCAAGAA-CACAACACTAAAAGATTGACTCCTCTTCACG
* * * * * * * *
24305 AGAAATTCAAG-A-ATAACACCAAAAGATCGACTACTTTTTCGCA
1 AGAAAGTCAAGAACACAACACTAAAAGATTGACT-CCTCTTCACG
* * * * *
24348 AGAAAGTCAAGAAAGATAACAGTAAAAGATTGACTCTTCTACACG
1 AGAAAGTCAAG-AACACAACACTAAAAGATTGACTCCTCTTCACG
* * * * *
24393 AGAAAGTCAAGAAAGACAACACTTAAAGATTGACTTCTCCTCATG
1 AGAAAGTCAAG-AACACAACACTAAAAGATTGACTCCTCTTCACG
* * * * * *
24438 CGAAAGTCAAG-A-ATAATATTGAAAGATTGACTCCTCTTCAAG
1 AGAAAGTCAAGAACACAACACTAAAAGATTGACTCCTCTTCACG
*
24480 AGAGAGTCAAG
1 AGAAAGTCAAG
24491 TTGAAGCTTC
Statistics
Matches: 492, Mismatches: 121, Indels: 37
0.76 0.19 0.06
Matches are distributed among these distances:
42 113 0.23
43 19 0.04
44 11 0.02
45 326 0.66
46 23 0.05
ACGTcount: A:0.42, C:0.20, G:0.16, T:0.22
Consensus pattern (44 bp):
AGAAAGTCAAGAACACAACACTAAAAGATTGACTCCTCTTCACG
Found at i:23971 original size:87 final size:88
Alignment explanation
Indices: 23835--24490 Score: 476
Period size: 87 Copynumber: 7.4 Consensus size: 88
23825 AGAATCATAA
* * * *
23835 CACTAAAAGATTGACTCCCCTTCTG-GAGAAAGTCGAGAATAACATCACTAAAAGGTTGACTTCT
1 CACTAAAAGATTGACTCCTCTTC-GCGAGAAAGTCAAGAA-AACAACACTAAAAGATTGACTTCT
* *
23899 CTTCACGAGAAAGACAA-G-AACAA
64 CTTCACGAGAAAGTCAAGGAAACAT
* * * * * *
23922 CACCAAAAGATCGACTCCTCTTCGCGAGAAAGTCAAGGAACACAACACTAAAAAATTAACTCCTC
1 CACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAA-GAAAACAACACTAAAAGATTGACTTCTC
**
23987 TTCATAAGAAAGTCAAGGATAACAT
65 TTCACGAGAAAGTCAAGGA-AACAT
* * * * * *
24012 CACTAAAAGGTTTACTTCTCTTCACGAGAAAGTCAAG--AACAACACCAAAAGATTGACTCCTCT
1 CACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAAACAACACTAAAAGATTGACTTCTCT
* *
24075 CCGCGAGAAAGTCAAGGATAACAT
66 TCACGAGAAAGTCAAGGA-AACAT
* * * * * * * *
24099 CACTAAAAGGTTTACTTCTCTTCACGAGAAAGTTAATAATAACATCACTAAAAGGTTGACTTCTC
1 CACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAA-AACAACACTAAAAGATTGACTTCTC
* *
24164 TTCACGAGAAAGTCAATGAGGACAT
65 TTCACGAGAAAGTCAAGGA-AACAT
* * * * *
24189 CA-AAAAATGATCGACTCCTCTTCGTGAGAAAGTCAAGGAAGACAACACTAAAATATTGA-TTCA
1 CACTAAAA-GATTGACTCCTCTTCGCGAGAAAGTCAA-GAAAACAACACTAAAAGATTGACTTC-
* * ** *
24252 TCTTCACGAGAAAATAAAAAATAACGT
63 TCTTCACGAGAAAGTCAAGGA-AACAT
* * * * * *
24279 CACTAAAAGGTTGACTTCTCTTCACGAGAAATTCAAGAATAAC-AC-C-AAAAGATCGACTACTT
1 CACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAA-AACAACACTAAAAGATTGACTTC-T
* * * *
24341 TTTCGCAAGAAAGTCAA-GAAAGAT
64 CTTCACGAGAAAGTCAAGGAAACAT
* * * * *
24365 AACAGTAAAAGATTGACTCTTCTACACGAGAAAGTCAAGAAAGACAACACTTAAAGATTGACTTC
1 --CACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAA-ACAACACTAAAAGATTGACTTC
* * *
24430 TCCTCATGCGAAAGTCAA-GAATA-AT
63 TCTTCACGAGAAAGTCAAGGAA-ACAT
* * ** *
24455 -ATTGAAAGATTGACTCCTCTTCAAGAGAGAGTCAAG
1 CACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAAG
24491 TTGAAGCTTC
Statistics
Matches: 448, Mismatches: 100, Indels: 42
0.76 0.17 0.07
Matches are distributed among these distances:
86 4 0.01
87 179 0.40
88 55 0.12
89 15 0.03
90 177 0.40
91 18 0.04
ACGTcount: A:0.41, C:0.21, G:0.16, T:0.22
Consensus pattern (88 bp):
CACTAAAAGATTGACTCCTCTTCGCGAGAAAGTCAAGAAAACAACACTAAAAGATTGACTTCTCT
TCACGAGAAAGTCAAGGAAACAT
Found at i:24031 original size:132 final size:132
Alignment explanation
Indices: 23816--24450 Score: 729
Period size: 132 Copynumber: 4.8 Consensus size: 132
23806 CATTTTTCCA
* * * ** *
23816 AGAAAATCAA-GAATCATAACACTAAAAGATTGACTCCCCTTCTGGAGAAAGTCGAGAATAACAT
1 AGAAAGTCAAGGAA-CACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAACAT
*
23880 CACTAAAAGGTTGACTTCTCTTCACGAGAAAGACAAGAACAACACCAAAAGATCGACTCCTCTTC
65 CACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAGAACAACACCAAAAGATCGACTCCTCTTC
23945 GCG
130 GCG
* * ** *
23948 AGAAAGTCAAGGAACACAACACTAAAAAATTAACTCCTCTTCATAAGAAAGTCAAGGATAACATC
1 AGAAAGTCAAGGAACACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAACATC
* * *
24013 ACTAAAAGGTTTACTTCTCTTCACGAGAAAGTCAAGAACAACACCAAAAGATTGACTCCTCTCCG
66 ACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAGAACAACACCAAAAGATCGACTCCTCTTCG
24078 CG
131 CG
* * * * * *
24080 AGAAAGTCAAGGATA-ACATCACTAAAAGGTTTACTTCTCTTCACGAGAAAGTTAATAATAACAT
1 AGAAAGTCAAGGA-ACACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAACAT
* *
24144 CACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAATGAGGACATCA-AAAAATGATCGACTCCT
65 CACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAA-GA--ACAACACCAAAA-GATCGACTCCT
*
24208 CTTCGTG
126 CTTCGCG
* * * * * * * *
24215 AGAAAGTCAAGGAAGACAACACTAAAATATTGATTCATCTTCACGAGAAAATAAAAAATAACGTC
1 AGAAAGTCAAGGAACACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAACATC
* * * *
24280 ACTAAAAGGTTGACTTCTCTTCACGAGAAATTCAAGAATAACACCAAAAGATCGACTACTTTTTC
66 ACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAGAACAACACCAAAAGATCGACT-CCTCTTC
*
24345 GCA
130 GCG
* * * * * * *
24348 AGAAAGTCAAGAAAGATAACAGTAAAAGATTGACTCTTCTACACGAGAAAGTCAAGAA-AGACAA
1 AGAAAGTCAAGGAACACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATA-ACAT
* * * * *
24412 CACTTAAAGATTGACTTCTCCTCATGCGAAAGTCAAGAA
65 CACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAGAA
24451 TAATATTGAA
Statistics
Matches: 426, Mismatches: 67, Indels: 19
0.83 0.13 0.04
Matches are distributed among these distances:
132 214 0.50
133 99 0.23
134 7 0.02
135 106 0.25
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (132 bp):
AGAAAGTCAAGGAACACAACACTAAAAGATTGACTCCTCTTCACGAGAAAGTCAAGAATAACATC
ACTAAAAGGTTGACTTCTCTTCACGAGAAAGTCAAGAACAACACCAAAAGATCGACTCCTCTTCG
CG
Found at i:24376 original size:46 final size:45
Alignment explanation
Indices: 23746--24427 Score: 195
Period size: 45 Copynumber: 15.2 Consensus size: 45
23736 ACATCACTGG
* * * *
23746 AAGATTAACTCGTCTCCACAAGAAAGTCAAGTCGAGAATGACATCACTAA
1 AAGATTGACTCTTCTACACAAGAAAGTCAA---GA-AA-GACAACACTAA
* * * * * ** *
23796 AAGGTTAACTCATTTTTC-CAAGAAAATCAAGAATCATAACACTAA
1 AAGATTGACTC-TTCTACACAAGAAAGTCAAGAAAGACAACACTAA
** * *** * *
23841 AAGATTGACTCCCCTTCTGGAGAAAGTCGAGAATA-ACATCACTAA
1 AAGATTGACTCTTCTACACAAGAAAGTCAAGAA-AGACAACACTAA
* * * * *
23886 AAGGTTGACT-TCTCTTCACGAGAAAGACAAG--A-ACAACACCAA
1 AAGATTGACTCT-TCTACACAAGAAAGTCAAGAAAGACAACACTAA
* * * * * * *
23928 AAGATCGACTCCTCTTCGCGAGAAAGTCAAGGAACACAACACTAA
1 AAGATTGACTCTTCTACACAAGAAAGTCAAGAAAGACAACACTAA
* * * * * * *
23973 AAAATTAACTCCTCTTCATAAGAAAGTCAAGGATA-ACATCACTAA
1 AAGATTGACTCTTCTACACAAGAAAGTCAA-GAAAGACAACACTAA
* * * * *
24018 AAGGTTTACT-TCTCTTCACGAGAAAGTCAAG--A-ACAACACCAA
1 AAGATTGACTCT-TCTACACAAGAAAGTCAAGAAAGACAACACTAA
* * * * * *
24060 AAGATTGACTCCTCTCCGCGAGAAAGTCAAGGATA-ACATCACTAA
1 AAGATTGACTCTTCTACACAAGAAAGTCAA-GAAAGACAACACTAA
* * * * * * *
24105 AAGGTTTACT-TCTCTTCACGAGAAAGTTAATAATA-ACATCACTAA
1 AAGATTGACTCT-TCTACACAAGAAAGTCAAGAA-AGACAACACTAA
* * * * * *
24150 AAGGTTGACT-TCTCTTCACGAGAAAGTCAATG-AGGACATCA-AAA
1 AAGATTGACTCT-TCTACACAAGAAAGTCAA-GAAAGACAACACTAA
* * * *** *
24194 AATGATCGACTCCTCTTCGTGAGAAAGTCAAGGAAGACAACACTAA
1 AA-GATTGACTCTTCTACACAAGAAAGTCAAGAAAGACAACACTAA
* * * * * * * * **
24240 AATATTGATTCATCTTCACGAGAAAAT-AAAAAATAACGTCACTAA
1 AAGATTGACTCTTCTACACAAGAAAGTCAAGAAA-GACAACACTAA
* * * *
24285 AAGGTTGACT-TCTCTTCACGAGAAATTCAAGAATA-AC-AC-C-AA
1 AAGATTGACTCT-TCTACACAAGAAAGTCAAGAA-AGACAACACTAA
* * * * * *
24327 AAGATCGACTACTTTTTCGCAAGAAAGTCAAGAAAGATAACAGTAA
1 AAGATTGACT-CTTCTACACAAGAAAGTCAAGAAAGACAACACTAA
* *
24373 AAGATTGACTCTTCTACACGAGAAAGTCAAGAAAGACAACACTTA
1 AAGATTGACTCTTCTACACAAGAAAGTCAAGAAAGACAACACTAA
24418 AAGATTGACT
1 AAGATTGACT
24428 TCTCCTCATG
Statistics
Matches: 484, Mismatches: 116, Indels: 69
0.72 0.17 0.10
Matches are distributed among these distances:
42 78 0.16
43 20 0.04
44 19 0.04
45 318 0.66
46 22 0.05
47 3 0.01
50 21 0.04
51 3 0.01
ACGTcount: A:0.42, C:0.21, G:0.15, T:0.22
Consensus pattern (45 bp):
AAGATTGACTCTTCTACACAAGAAAGTCAAGAAAGACAACACTAA
Found at i:30809 original size:16 final size:16
Alignment explanation
Indices: 30785--30821 Score: 56
Period size: 16 Copynumber: 2.3 Consensus size: 16
30775 TTGTCGGTGC
* *
30785 CCCTTGTGCTGCCAGA
1 CCCTCGTGCTGCCAAA
30801 CCCTCGTGCTGCCAAA
1 CCCTCGTGCTGCCAAA
30817 CCCTC
1 CCCTC
30822 AATCCTGACC
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 19 1.00
ACGTcount: A:0.14, C:0.46, G:0.19, T:0.22
Consensus pattern (16 bp):
CCCTCGTGCTGCCAAA
Found at i:43402 original size:3 final size:3
Alignment explanation
Indices: 43394--43461 Score: 82
Period size: 3 Copynumber: 22.0 Consensus size: 3
43384 CAGTTCATTT
** **
43394 TTA TTA TTA TTA AAA TTA AAA TTA TTA TTA TTA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
43442 TTA TTA TATA TTA TTTA TTA
1 TTA TTA T-TA TTA -TTA TTA
43462 AATATTACAA
Statistics
Matches: 55, Mismatches: 8, Indels: 4
0.82 0.12 0.06
Matches are distributed among these distances:
3 49 0.89
4 6 0.11
ACGTcount: A:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (3 bp):
TTA
Found at i:43466 original size:16 final size:16
Alignment explanation
Indices: 43419--43466 Score: 55
Period size: 15 Copynumber: 3.1 Consensus size: 16
43409 TTAAAATTAT
*
43419 TATTATTATTATTAT-
1 TATTATTATTATAATA
*
43434 TATTATTATTATTATA
1 TATTATTATTATAATA
43450 TATTATTTATTA-AATA
1 TATTA-TTATTATAATA
43466 T
1 T
43467 TACAAAGCCC
Statistics
Matches: 30, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
15 15 0.50
16 9 0.30
17 6 0.20
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATTATTATAATA
Found at i:44793 original size:16 final size:17
Alignment explanation
Indices: 44772--44806 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
44762 AACAATTTTG
44772 ATATTTTT-AATTTAAT
1 ATATTTTTCAATTTAAT
*
44788 ATATTTTTCATTTTAAT
1 ATATTTTTCAATTTAAT
44805 AT
1 AT
44807 TATTGCTTTT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 8 0.47
17 9 0.53
ACGTcount: A:0.34, C:0.03, G:0.00, T:0.63
Consensus pattern (17 bp):
ATATTTTTCAATTTAAT
Found at i:44806 original size:15 final size:16
Alignment explanation
Indices: 44782--44861 Score: 56
Period size: 16 Copynumber: 4.8 Consensus size: 16
44772 ATATTTTTAA
*
44782 TTTAATATATTTTTCAT
1 TTTAATAT-TATTTCAT
*
44799 TTTAATATTATTGC-T
1 TTTAATATTATTTCAT
*
44814 TTTAAT-TTCTTTCAT
1 TTTAATATTATTTCAT
*
44829 TTTGATTATTATTATTTTAT
1 TTT-A--A-TATTATTTCAT
*
44849 TTTACTATTATTT
1 TTTAATATTATTT
44862 TTTTATATGT
Statistics
Matches: 50, Mismatches: 7, Indels: 13
0.71 0.10 0.19
Matches are distributed among these distances:
14 5 0.10
15 11 0.22
16 13 0.26
17 8 0.16
18 1 0.02
19 2 0.04
20 10 0.20
ACGTcount: A:0.25, C:0.06, G:0.03, T:0.66
Consensus pattern (16 bp):
TTTAATATTATTTCAT
Found at i:50061 original size:8 final size:8
Alignment explanation
Indices: 50045--50083 Score: 51
Period size: 8 Copynumber: 4.8 Consensus size: 8
50035 CTATACTTGA
50045 AAAAAAGG
1 AAAAAAGG
*
50053 AAAAGAGG
1 AAAAAAGG
*
50061 AAAAAAAGA
1 -AAAAAAGG
50070 AAAAAAGG
1 AAAAAAGG
50078 AAAAAA
1 AAAAAA
50084 TTGAATCAAG
Statistics
Matches: 26, Mismatches: 4, Indels: 2
0.81 0.12 0.06
Matches are distributed among these distances:
8 20 0.77
9 6 0.23
ACGTcount: A:0.79, C:0.00, G:0.21, T:0.00
Consensus pattern (8 bp):
AAAAAAGG
Found at i:50065 original size:17 final size:17
Alignment explanation
Indices: 50043--50083 Score: 64
Period size: 17 Copynumber: 2.4 Consensus size: 17
50033 TACTATACTT
* *
50043 GAAAAAAAGGAAAAGAG
1 GAAAAAAAGAAAAAAAG
50060 GAAAAAAAGAAAAAAAG
1 GAAAAAAAGAAAAAAAG
50077 GAAAAAA
1 GAAAAAA
50084 TTGAATCAAG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
17 22 1.00
ACGTcount: A:0.78, C:0.00, G:0.22, T:0.00
Consensus pattern (17 bp):
GAAAAAAAGAAAAAAAG
Found at i:51228 original size:31 final size:31
Alignment explanation
Indices: 51193--51259 Score: 91
Period size: 31 Copynumber: 2.2 Consensus size: 31
51183 TGCGAAACAA
51193 TATTTAGTAT-ACCACCATACCTATCAATCAG
1 TATTT-GTATGACCACCATACCTATCAATCAG
* * *
51224 TATTTTTATGCCCATCATACCTATCAATCAG
1 TATTTGTATGACCACCATACCTATCAATCAG
51255 TATTT
1 TATTT
51260 TCCAAAATAT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
30 3 0.09
31 29 0.91
ACGTcount: A:0.31, C:0.24, G:0.06, T:0.39
Consensus pattern (31 bp):
TATTTGTATGACCACCATACCTATCAATCAG
Found at i:51455 original size:21 final size:21
Alignment explanation
Indices: 51430--51472 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
51420 GCACACATAG
51430 TTCCAAAAGTACACAAAGTAC
1 TTCCAAAAGTACACAAAGTAC
51451 TTCCAAAAGTACACAAAGTAC
1 TTCCAAAAGTACACAAAGTAC
51472 T
1 T
51473 CATTAAACAA
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:0.47, C:0.23, G:0.09, T:0.21
Consensus pattern (21 bp):
TTCCAAAAGTACACAAAGTAC
Found at i:53501 original size:28 final size:28
Alignment explanation
Indices: 53420--53510 Score: 92
Period size: 28 Copynumber: 3.1 Consensus size: 28
53410 ACCGATTACA
* * * *
53420 TAACTTTTAAAAATTACATTTTAGTCAC
1 TAACTTTCAAAATTTATATTTTGGTCAC
** *
53448 TAAACTTTTCTAATGTTTATACTTTGGTCAC
1 T-AAC-TTTC-AAAATTTATATTTTGGTCAC
53479 TAACTTTCAAAATTTATATTTTGGTCAC
1 TAACTTTCAAAATTTATATTTTGGTCAC
53507 TAAC
1 TAAC
53511 CAAAATTTGG
Statistics
Matches: 50, Mismatches: 10, Indels: 6
0.76 0.15 0.09
Matches are distributed among these distances:
28 22 0.44
29 7 0.14
30 6 0.12
31 15 0.30
ACGTcount: A:0.33, C:0.15, G:0.07, T:0.45
Consensus pattern (28 bp):
TAACTTTCAAAATTTATATTTTGGTCAC
Done.