Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002027.1 Hibiscus syriacus cultivar Beakdansim tig00004139_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: 64794
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.32
Found at i:9513 original size:88 final size:89
Alignment explanation
Indices: 9397--9570 Score: 280
Period size: 90 Copynumber: 2.0 Consensus size: 89
9387 AGACCTAACA
* * *
9397 CTTTTATACCAATTTACCCTAATCATATTAGGG-TTTTATTATTTCAAATTAATT-AAATTATAT
1 CTTTTATAACAACTTACCATAATCATATTAGGGATTTTATTATTTCAAATTAATTAAAATTATAT
* *
9460 TTAATTAATTGAAATTTAATAATC
66 TTAATTAATTAAAATTAAATAATC
9484 CTTTTATATACAACTTACCATAATCATATTAGGGATTTTATTATTTCAAATTAATTAAAATTATA
1 CTTTTATA-ACAACTTACCATAATCATATTAGGGATTTTATTATTTCAAATTAATTAAAATTATA
9549 TTTAATTAATTAAAATTAAATA
65 TTTAATTAATTAAAATTAAATA
9571 TTCAAGATTA
Statistics
Matches: 79, Mismatches: 5, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
87 8 0.10
88 22 0.28
89 21 0.27
90 28 0.35
ACGTcount: A:0.41, C:0.09, G:0.04, T:0.46
Consensus pattern (89 bp):
CTTTTATAACAACTTACCATAATCATATTAGGGATTTTATTATTTCAAATTAATTAAAATTATAT
TTAATTAATTAAAATTAAATAATC
Found at i:9600 original size:20 final size:20
Alignment explanation
Indices: 9532--9600 Score: 59
Period size: 20 Copynumber: 3.2 Consensus size: 20
9522 TATTATTTCA
*
9532 AATTAATTAAAATTATATTT
1 AATTAATTAAAAATATATTT
* *
9552 AATTAATTAAAATTAAATATTCA
1 AATTAATTAAAA--ATATATT-T
9575 AGATT-ATTAAAACATATATTT
1 A-ATTAATTAAAA-ATATATTT
9596 AATTA
1 AATTA
9601 CTCTATTTTA
Statistics
Matches: 38, Mismatches: 6, Indels: 9
0.72 0.11 0.17
Matches are distributed among these distances:
20 15 0.39
21 1 0.03
22 11 0.29
23 8 0.21
24 3 0.08
ACGTcount: A:0.52, C:0.03, G:0.01, T:0.43
Consensus pattern (20 bp):
AATTAATTAAAAATATATTT
Found at i:20005 original size:15 final size:16
Alignment explanation
Indices: 19985--20025 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
19975 GTTTACTTCA
*
19985 GAATGATT-AAGCGTT
1 GAATGATTCAAACGTT
*
20000 GAATGATTCAAATGTT
1 GAATGATTCAAACGTT
20016 GAATGATTCA
1 GAATGATTCA
20026 GAGGCTTTAG
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
15 8 0.35
16 15 0.65
ACGTcount: A:0.37, C:0.07, G:0.22, T:0.34
Consensus pattern (16 bp):
GAATGATTCAAACGTT
Found at i:25311 original size:787 final size:786
Alignment explanation
Indices: 23799--25379 Score: 3099
Period size: 787 Copynumber: 2.0 Consensus size: 786
23789 TTTCAAACTG
23799 ATCTGCACTGTGCTGCAACACTACATGTTATTGTGTCTTGTTGAAAGCAAAGGATACTTTGAAAG
1 ATCTGCACTGTGCTGCAACACTACATGTTATTGTGTCTTGTTGAAAGCAAAGGATACTTTGAAAG
23864 GAAAAGCAGACAGGCCCATTTGAATTACTGGTTTTACAATACCAAATACCTCTCAAAGAAAAATG
66 GAAAAGCAGACAGGCCCATTTGAATTACTGGTTTTACAATACCAAATACCTCTCAAAGAAAAATG
*
23929 AAATAAGTTGCAGCAGATACAATTGCTATGTTTTATTGATTAAAGGTATTATACAGAATGAGCAA
131 AAATAAGTAGCAGCAGATACAATTGCTATGTTTTATTGATTAAAGGTATTATACAGAATGAGCAA
23994 TCCATGACGTAAATTATAGTAAACCCTCAGAAGCCTCTGGAATATCCTCTAGAAAAACAAATTGT
196 TCCATGACGTAAATTATAGTAAACCCTCAGAAGCCTCTGGAATATCCTCTAGAAAAACAAATTGT
*
24059 TCTTTCGTTTGAGATATGCTGTGAAAAAGTTGAACGCCTCTTCATGCATTCAAGATATGCATTTT
261 TCTTCCGTTTGAGATATGCTGTGAAAAAGTTGAACGCCTCTTCATGCATTCAAGATATGCATTTT
24124 CAGTGATAACAAGAGAAATTCATATACAATTTCAAAAAATAAAACCCAGAGAAAGCAACTTTAGC
326 CAGTGATAACAAGAGAAATTCATATACAATTTCAAAAAATAAAACCCAGAGAAAGCAACTTTAGC
24189 AGTAATGAAGAACGAAACACAAATTCATATGCAGAAAAGAGAAATTCATACTTTAGATCCACGTA
391 AGTAATGAAGAACGAAACACAAATTCATATGCAGAAAAGAGAAATTCATACTTTAGATCCACGTA
24254 CAACAACTCTGAAACTCTGTGATGATCTTTTAGAAAGCTGAGCAAACTTTTCTCTCCATGTTGTA
456 CAACAACTCTGAAACTCTGTGATGATCTTTTAGAAAGCTGAGCAAACTTTTCTCTCCATGTTGTA
24319 GATTCATCCTTTGGCACAGGTTCAGTGAAAACAATTTTTCCTACAAAGCCAACATAGGGCATGAA
521 GATTCATCCTTTGGCACAGGTTCAGTGAAAACAATTTTTCCTACAAAGCCAACATAGGGCATGAA
24384 TAAACAAATCAGAATACAATTTAGTGTTTTATGTTCTATGCAGCATACTCACCAAGATTTTTGTA
586 TAAACAAATCAGAATACAATTTAGTGTTTTATGTTCTATGCAGCATACTCACCAAGATTTTTGTA
24449 TCTTTCTTCACATTGATCCAAGGTCATCAACTTAATACCATGGGCACAAGCGAGCATTCCACCGG
651 TCTTTCTTCACATTGATCCAAGGTCATCAACTTAATACCATGGGCACAAGCGAGCATTCCACCGG
24514 TTGATGTTCCACATATAAGGTCAAATAGCTCATGTATTCTCTTTCCAGTTCCCTTCTCAATTTCT
716 TTGATGTTCCACATATAAGGTCAAATAGCTCATGTATTCTCTTTCCAGTTCCCTTCTCAATTTCT
24579 TTAAGC
781 TTAAGC
24585 ATCTGCACTGTGCTGCAACACTACATGTTATTGTGTCTTGTTGAAAGCAAAGGATACTTTGAAAG
1 ATCTGCACTGTGCTGCAACACTACATGTTATTGTGTCTTGTTGAAAGCAAAGGATACTTTGAAAG
*
24650 GAAAAGCAGACAGGCCCATTTGAATTACTGGTTTTACAATACCAAATACCTCTTAAAGAAAAATG
66 GAAAAGCAGACAGGCCCATTTGAATTACTGGTTTTACAATACCAAATACCTCTCAAAGAAAAATG
24715 AAATAAGTAGCAGCAGATACAATTGCTATGTTTTATTGATTAAAGGTATTATACAGAATGAGCAA
131 AAATAAGTAGCAGCAGATACAATTGCTATGTTTTATTGATTAAAGGTATTATACAGAATGAGCAA
24780 TCCATGACGTAAATTATAGTAAACCCTCAGAAGCCTCTGGAAATATCCTCTAGAAAAACAAATTG
196 TCCATGACGTAAATTATAGTAAACCCTCAGAAGCCTCTGG-AATATCCTCTAGAAAAACAAATTG
24845 TTCTTCCGTTTGAGATATGCTGTGAAAAAGTTGAACGCCTCTTCATGCATTCAAGATATGCATTT
260 TTCTTCCGTTTGAGATATGCTGTGAAAAAGTTGAACGCCTCTTCATGCATTCAAGATATGCATTT
24910 TCAGTGATAACAAGAGAAATTCATATACAATTTCAAAAAATAAAACCCAGAGAAAGCAACTTTAG
325 TCAGTGATAACAAGAGAAATTCATATACAATTTCAAAAAATAAAACCCAGAGAAAGCAACTTTAG
24975 CAGTAATGAAGAACGAAACACAAATTCATATGCAGAAAAGAGAAATTCATACTTTAGATCCACGT
390 CAGTAATGAAGAACGAAACACAAATTCATATGCAGAAAAGAGAAATTCATACTTTAGATCCACGT
*
25040 ACAACAATTCTGAAACTCTGTGATGATCTTTTAGAAAGCTGAGCAAACTTTTCTCTCCATGTTGT
455 ACAACAACTCTGAAACTCTGTGATGATCTTTTAGAAAGCTGAGCAAACTTTTCTCTCCATGTTGT
25105 AGATTCATCCTTTGGCACAGGTTCAGTGAAAACAATTTTTCCTACAAAGCCAACATAGGGCATGA
520 AGATTCATCCTTTGGCACAGGTTCAGTGAAAACAATTTTTCCTACAAAGCCAACATAGGGCATGA
25170 ATAAACAAATCAGAATACAATTTAGTGTTTTATGTTCTATGCAGCATACTCACCAAGATTTTTGT
585 ATAAACAAATCAGAATACAATTTAGTGTTTTATGTTCTATGCAGCATACTCACCAAGATTTTTGT
* *
25235 ATCTTTCTTCACATTGATCCAAGGTCGTCAACTTAATACCATGGGCACAAGCTAGCATTCCACCG
650 ATCTTTCTTCACATTGATCCAAGGTCATCAACTTAATACCATGGGCACAAGCGAGCATTCCACCG
25300 GTTGATGTTCCACATATAAGGTCAAATAGCTCATGTATTCTCTTTCCAGTTCCCTTCTCAATTTC
715 GTTGATGTTCCACATATAAGGTCAAATAGCTCATGTATTCTCTTTCCAGTTCCCTTCTCAATTTC
25365 TTTAAGC
780 TTTAAGC
25372 ATCTGCAC
1 ATCTGCAC
25380 AGTTGCAAGA
Statistics
Matches: 788, Mismatches: 6, Indels: 1
0.99 0.01 0.00
Matches are distributed among these distances:
786 233 0.30
787 555 0.70
ACGTcount: A:0.35, C:0.19, G:0.16, T:0.30
Consensus pattern (786 bp):
ATCTGCACTGTGCTGCAACACTACATGTTATTGTGTCTTGTTGAAAGCAAAGGATACTTTGAAAG
GAAAAGCAGACAGGCCCATTTGAATTACTGGTTTTACAATACCAAATACCTCTCAAAGAAAAATG
AAATAAGTAGCAGCAGATACAATTGCTATGTTTTATTGATTAAAGGTATTATACAGAATGAGCAA
TCCATGACGTAAATTATAGTAAACCCTCAGAAGCCTCTGGAATATCCTCTAGAAAAACAAATTGT
TCTTCCGTTTGAGATATGCTGTGAAAAAGTTGAACGCCTCTTCATGCATTCAAGATATGCATTTT
CAGTGATAACAAGAGAAATTCATATACAATTTCAAAAAATAAAACCCAGAGAAAGCAACTTTAGC
AGTAATGAAGAACGAAACACAAATTCATATGCAGAAAAGAGAAATTCATACTTTAGATCCACGTA
CAACAACTCTGAAACTCTGTGATGATCTTTTAGAAAGCTGAGCAAACTTTTCTCTCCATGTTGTA
GATTCATCCTTTGGCACAGGTTCAGTGAAAACAATTTTTCCTACAAAGCCAACATAGGGCATGAA
TAAACAAATCAGAATACAATTTAGTGTTTTATGTTCTATGCAGCATACTCACCAAGATTTTTGTA
TCTTTCTTCACATTGATCCAAGGTCATCAACTTAATACCATGGGCACAAGCGAGCATTCCACCGG
TTGATGTTCCACATATAAGGTCAAATAGCTCATGTATTCTCTTTCCAGTTCCCTTCTCAATTTCT
TTAAGC
Found at i:32230 original size:60 final size:60
Alignment explanation
Indices: 32140--32320 Score: 175
Period size: 60 Copynumber: 3.0 Consensus size: 60
32130 AAGTTTCCGG
* * * * * *
32140 ACTATGA-TCCTCATTTTAAAATGGTTCTTAAACTTTTGAATATTTTAATTTCGTTCTCAA
1 ACTATGACT-CTCATTTTAAATTAGTCCTTAAACTTTTGAATATTTTAATTTCATCCACAA
* * * * * *
32200 ATTATGACTCTTATTTTAAATTAGTCCTTAAACTTTTAAACATTTTGATTTTATCCACAA
1 ACTATGACTCTCATTTTAAATTAGTCCTTAAACTTTTGAATATTTTAATTTCATCCACAA
* * * * * * *
32260 ACTATGTCTCTCATTCTAAATTAGTCATCAAACTTTTGAATATTCTAATTTTATCCCCAA
1 ACTATGACTCTCATTTTAAATTAGTCCTTAAACTTTTGAATATTTTAATTTCATCCACAA
32320 A
1 A
32321 TTCATCAAAT
Statistics
Matches: 97, Mismatches: 23, Indels: 2
0.80 0.19 0.02
Matches are distributed among these distances:
60 96 0.99
61 1 0.01
ACGTcount: A:0.32, C:0.17, G:0.06, T:0.45
Consensus pattern (60 bp):
ACTATGACTCTCATTTTAAATTAGTCCTTAAACTTTTGAATATTTTAATTTCATCCACAA
Found at i:40151 original size:27 final size:27
Alignment explanation
Indices: 40120--40182 Score: 90
Period size: 27 Copynumber: 2.3 Consensus size: 27
40110 AATAGTACTA
*
40120 AATGATTCAACACAAAAGTACATTTTG
1 AATGATTCAACACAAAAGTACATTCTG
* * *
40147 AATGATTTAGCACAGAAGTACATTCTG
1 AATGATTCAACACAAAAGTACATTCTG
40174 AATGATTCA
1 AATGATTCA
40183 GAGCTATTAT
Statistics
Matches: 31, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 31 1.00
ACGTcount: A:0.41, C:0.14, G:0.14, T:0.30
Consensus pattern (27 bp):
AATGATTCAACACAAAAGTACATTCTG
Found at i:49589 original size:8 final size:8
Alignment explanation
Indices: 49576--50430 Score: 1603
Period size: 8 Copynumber: 107.5 Consensus size: 8
49566 AACTATTAGA
*
49576 TATGTATG
1 TATGCATG
*
49584 TATGTATG
1 TATGCATG
*
49592 TATGTATG
1 TATGCATG
*
49600 TATGTATG
1 TATGCATG
*
49608 TATGTATG
1 TATGCATG
*
49616 TATGTATG
1 TATGCATG
*
49624 TATGTATG
1 TATGCATG
*
49632 TATGTATG
1 TATGCATG
49640 TATGCATG
1 TATGCATG
49648 TATGCATG
1 TATGCATG
49656 TATGCATG
1 TATGCATG
49664 TATGCATG
1 TATGCATG
49672 TATGCATG
1 TATGCATG
49680 TATGCATG
1 TATGCATG
49688 TATGCATG
1 TATGCATG
49696 TATGCATG
1 TATGCATG
49704 TATGCATG
1 TATGCATG
49712 TATGCA-G
1 TATGCATG
49719 TATGCATG
1 TATGCATG
49727 TATGCATG
1 TATGCATG
49735 TATGCATG
1 TATGCATG
49743 TATGCATG
1 TATGCATG
49751 TATGCATG
1 TATGCATG
49759 TATGCATG
1 TATGCATG
49767 TATGCATG
1 TATGCATG
49775 TATGCATG
1 TATGCATG
49783 TATGCATG
1 TATGCATG
49791 TATGCATG
1 TATGCATG
49799 TATGCATG
1 TATGCATG
49807 TATGCATG
1 TATGCATG
49815 TATGCATG
1 TATGCATG
49823 TATGCATG
1 TATGCATG
49831 TATGCATG
1 TATGCATG
49839 TATGCATG
1 TATGCATG
49847 TATGCATG
1 TATGCATG
49855 TATGCATG
1 TATGCATG
49863 TATGCATG
1 TATGCATG
49871 TATGCATG
1 TATGCATG
49879 TATGCATG
1 TATGCATG
49887 TATGCATG
1 TATGCATG
49895 TATGCATG
1 TATGCATG
49903 TATGCATG
1 TATGCATG
49911 TATGCATG
1 TATGCATG
49919 TATGCATG
1 TATGCATG
49927 TATGCATG
1 TATGCATG
49935 TATGCATG
1 TATGCATG
49943 TATGCATG
1 TATGCATG
49951 TATGCATG
1 TATGCATG
49959 TATGCATG
1 TATGCATG
49967 TATGCATG
1 TATGCATG
49975 TATGCATG
1 TATGCATG
49983 TATGCATG
1 TATGCATG
49991 TATGCATG
1 TATGCATG
49999 TATGCATG
1 TATGCATG
50007 TATGCATG
1 TATGCATG
50015 TATGCATG
1 TATGCATG
50023 TATGCATG
1 TATGCATG
50031 TATGCATG
1 TATGCATG
50039 TATGCATG
1 TATGCATG
50047 TATGCATG
1 TATGCATG
50055 TATGCATG
1 TATGCATG
50063 TATGCATG
1 TATGCATG
50071 TATGCATG
1 TATGCATG
50079 TATGCATG
1 TATGCATG
50087 TATGCATG
1 TATGCATG
50095 TATGCATG
1 TATGCATG
50103 TATGCATG
1 TATGCATG
50111 TATGCATG
1 TATGCATG
50119 TATGCATG
1 TATGCATG
50127 TATGCATG
1 TATGCATG
50135 TATGCATG
1 TATGCATG
50143 --T--ATG
1 TATGCATG
50147 TATGCATG
1 TATGCATG
50155 TATGCATG
1 TATGCATG
50163 TATGCATG
1 TATGCATG
50171 TATGCATG
1 TATGCATG
50179 TATGCATG
1 TATGCATG
50187 TATGCATG
1 TATGCATG
50195 TATGCATG
1 TATGCATG
50203 TATGCATG
1 TATGCATG
50211 TATGCATG
1 TATGCATG
50219 TATGCATG
1 TATGCATG
50227 TATGCATG
1 TATGCATG
50235 TATGCATG
1 TATGCATG
50243 TATGCATG
1 TATGCATG
50251 TATGCATG
1 TATGCATG
50259 TATGCATG
1 TATGCATG
50267 TATGCATG
1 TATGCATG
50275 TATGCATG
1 TATGCATG
50283 TATGCATG
1 TATGCATG
50291 TATGCATG
1 TATGCATG
50299 TATGCATG
1 TATGCATG
50307 TATGCATG
1 TATGCATG
50315 TATGCATG
1 TATGCATG
50323 TATGCATG
1 TATGCATG
50331 TATGCATG
1 TATGCATG
50339 TATGCATG
1 TATGCATG
50347 TATGCATG
1 TATGCATG
50355 TATGCATG
1 TATGCATG
50363 TATGCATG
1 TATGCATG
50371 TATGCATG
1 TATGCATG
50379 TATGCATG
1 TATGCATG
50387 TATGCATG
1 TATGCATG
50395 TATGCATG
1 TATGCATG
50403 TATGCATG
1 TATGCATG
50411 TATGCATG
1 TATGCATG
50419 TATGCATG
1 TATGCATG
50427 TATG
1 TATG
50431 TATATAAACT
Statistics
Matches: 841, Mismatches: 1, Indels: 10
0.99 0.00 0.01
Matches are distributed among these distances:
4 3 0.00
6 2 0.00
7 7 0.01
8 829 0.99
ACGTcount: A:0.25, C:0.11, G:0.25, T:0.38
Consensus pattern (8 bp):
TATGCATG
Found at i:56469 original size:40 final size:41
Alignment explanation
Indices: 56385--56471 Score: 115
Period size: 41 Copynumber: 2.1 Consensus size: 41
56375 CGGAATCCCA
* *
56385 TGTTTGTTTCACGTCATTCGTTTTTCGAAAAATATTTTCCG
1 TGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATTTTCAG
* *
56426 TGTTTGTTTCACGTAATTCG-TTTTCTGGAAAATGTTTT-AG
1 TGTTTGTTTCACGTAATTCGTTTTTC-GAAAAATATTTTCAG
56466 TGTTTG
1 TGTTTG
56472 GTTGGAGGAA
Statistics
Matches: 41, Mismatches: 4, Indels: 3
0.85 0.08 0.06
Matches are distributed among these distances:
40 12 0.29
41 29 0.71
ACGTcount: A:0.18, C:0.13, G:0.18, T:0.51
Consensus pattern (41 bp):
TGTTTGTTTCACGTAATTCGTTTTTCGAAAAATATTTTCAG
Found at i:56839 original size:27 final size:26
Alignment explanation
Indices: 56793--56883 Score: 78
Period size: 27 Copynumber: 3.4 Consensus size: 26
56783 TATATAATAA
* *
56793 ATTATTAATAA-AATTTATATTATTT
1 ATTATTAATAAGAAATAATATTATTT
* *
56818 ATTAATTTCAT-AGAAATAATATTATTAA
1 ATT-A-TTAATAAGAAATAATATTATT-T
*
56846 ATTATTAATAATAAATAATATTATTT
1 ATTATTAATAAGAAATAATATTATTT
56872 ATATATTTAATA
1 AT-TA-TTAATA
56884 TAATAATCTA
Statistics
Matches: 52, Mismatches: 7, Indels: 11
0.74 0.10 0.16
Matches are distributed among these distances:
25 3 0.06
26 8 0.15
27 32 0.62
28 9 0.17
ACGTcount: A:0.48, C:0.01, G:0.01, T:0.49
Consensus pattern (26 bp):
ATTATTAATAAGAAATAATATTATTT
Found at i:56886 original size:27 final size:27
Alignment explanation
Indices: 56809--56890 Score: 82
Period size: 27 Copynumber: 3.1 Consensus size: 27
56799 AATAAAATTT
* *
56809 ATATTATTTAT-TAATTTCATAGAAATA
1 ATATTATTTATAT-ATTTAATATAAATA
*
56836 ATATTA-TTAAAT-TATTAATAATAAATA
1 ATATTATTTATATAT-TTAAT-ATAAATA
56863 ATATTATTTATATATTTAATAT-AATA
1 ATATTATTTATATATTTAATATAAATA
56889 AT
1 AT
56891 CTAATAATAT
Statistics
Matches: 46, Mismatches: 4, Indels: 11
0.75 0.07 0.18
Matches are distributed among these distances:
25 1 0.02
26 13 0.28
27 21 0.46
28 10 0.22
29 1 0.02
ACGTcount: A:0.49, C:0.01, G:0.01, T:0.49
Consensus pattern (27 bp):
ATATTATTTATATATTTAATATAAATA
Found at i:56922 original size:23 final size:22
Alignment explanation
Indices: 56903--56946 Score: 61
Period size: 22 Copynumber: 2.0 Consensus size: 22
56893 AATAATATTT
56903 TAATAAAGATATTTAAAATATAC
1 TAAT-AAGATATTTAAAATATAC
* *
56926 TAATAATATTTTTAAAATATA
1 TAATAAGATATTTAAAATATA
56947 TATAAAACTA
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
22 15 0.79
23 4 0.21
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.41
Consensus pattern (22 bp):
TAATAAGATATTTAAAATATAC
Found at i:57055 original size:33 final size:35
Alignment explanation
Indices: 56961--57056 Score: 85
Period size: 33 Copynumber: 2.8 Consensus size: 35
56951 AAACTATTAC
* *
56961 TTTAATAAATAATAATATACT-TTATAATATTTTTTA
1 TTTAATAAATTATAAAATA-TATT-TAATATTTTTTA
* **
56997 TTTCAATAAAATATACCA-ATA-TTAATA-TTTTTA
1 TTT-AATAAATTATAAAATATATTTAATATTTTTTA
57030 -TTAATAAATTATAAAATATATTTAATA
1 TTTAATAAATTATAAAATATATTTAATA
57057 ATAAATAAAT
Statistics
Matches: 49, Mismatches: 7, Indels: 11
0.73 0.10 0.16
Matches are distributed among these distances:
31 11 0.22
32 5 0.10
33 12 0.24
34 5 0.10
35 2 0.04
36 4 0.08
37 10 0.20
ACGTcount: A:0.48, C:0.04, G:0.00, T:0.48
Consensus pattern (35 bp):
TTTAATAAATTATAAAATATATTTAATATTTTTTA
Found at i:63262 original size:12 final size:13
Alignment explanation
Indices: 63242--63268 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
63232 TCAAGTGAGG
63242 CATTTTTTTGTAT
1 CATTTTTTTGTAT
63255 CATTTTTTTGTAT
1 CATTTTTTTGTAT
63268 C
1 C
63269 TAAATCTATT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.11, G:0.07, T:0.67
Consensus pattern (13 bp):
CATTTTTTTGTAT
Done.