Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01001798.1 Hibiscus syriacus cultivar Beakdansim tig00003637_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: 120014
ACGTcount: A:0.32, C:0.18, G:0.18, T:0.33
Found at i:7504 original size:18 final size:18
Alignment explanation
Indices: 7481--7519 Score: 78
Period size: 18 Copynumber: 2.2 Consensus size: 18
7471 CTCATCCCAA
7481 GCAGTAAGAAAGGTTTTT
1 GCAGTAAGAAAGGTTTTT
7499 GCAGTAAGAAAGGTTTTT
1 GCAGTAAGAAAGGTTTTT
7517 GCA
1 GCA
7520 TCAGCAGGAA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 21 1.00
ACGTcount: A:0.33, C:0.08, G:0.28, T:0.31
Consensus pattern (18 bp):
GCAGTAAGAAAGGTTTTT
Found at i:14874 original size:22 final size:22
Alignment explanation
Indices: 14813--14875 Score: 54
Period size: 25 Copynumber: 2.7 Consensus size: 22
14803 TTAAGAAATC
* * *
14813 TAATTAATAATTATTTATTTAT
1 TAATTAAAAATTATTAAATTAT
*
14835 TAATAAATAAAAAATATTAAATTAT
1 TAAT---TAAAAATTATTAAATTAT
*
14860 TAATTAACAATTATTA
1 TAATTAAAAATTATTA
14876 TTAATTTTCT
Statistics
Matches: 32, Mismatches: 6, Indels: 6
0.73 0.14 0.14
Matches are distributed among these distances:
22 14 0.44
25 18 0.56
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.46
Consensus pattern (22 bp):
TAATTAAAAATTATTAAATTAT
Found at i:28680 original size:60 final size:60
Alignment explanation
Indices: 28515--28680 Score: 162
Period size: 60 Copynumber: 2.8 Consensus size: 60
28505 TATAGATTGA
* * * * *
28515 GATGAAACTGAAATGTTCAAAAAGTTTG-GAGCCTAATTTAAAATGAAGGTCATAGTTTGGG
1 GATGAAATTAAAATGTTC-AAAAGTCTGAG-GACTAATTTAAAATGAAGGTCATAGTTTAGG
* *
28576 GATGAAATTAAAATGTTCAAAAGTCTGAGGACTAATCTAGAATGATA-GTCATAGTTTAGG
1 GATGAAATTAAAATGTTCAAAAGTCTGAGGACTAATTTAAAATGA-AGGTCATAGTTTAGG
* *
28636 GATGAAATTATAACAT-TT-AAAA-TTTTAGAGACTAATTTAAAATGA
1 GATGAAATTA-AA-ATGTTCAAAAGTCTGAG-GACTAATTTAAAATGA
28681 GGCTAATGCT
Statistics
Matches: 89, Mismatches: 11, Indels: 11
0.80 0.10 0.10
Matches are distributed among these distances:
59 4 0.04
60 61 0.69
61 22 0.25
62 2 0.02
ACGTcount: A:0.42, C:0.07, G:0.20, T:0.31
Consensus pattern (60 bp):
GATGAAATTAAAATGTTCAAAAGTCTGAGGACTAATTTAAAATGAAGGTCATAGTTTAGG
Found at i:34790 original size:36 final size:38
Alignment explanation
Indices: 34730--34803 Score: 125
Period size: 37 Copynumber: 2.0 Consensus size: 38
34720 ATATTTCAAC
34730 AAACATCTACCAAACTTTGAAAAACCA-TTTTTCAAAG
1 AAACATCTACCAAACTTTGAAAAACCATTTTTTCAAAG
*
34767 AAACATTTACCAAACTTTG-AAAACCATTTTTTCAAAG
1 AAACATCTACCAAACTTTGAAAAACCATTTTTTCAAAG
34804 TTGGTTGCCA
Statistics
Matches: 35, Mismatches: 1, Indels: 2
0.92 0.03 0.05
Matches are distributed among these distances:
36 7 0.20
37 28 0.80
ACGTcount: A:0.45, C:0.20, G:0.05, T:0.30
Consensus pattern (38 bp):
AAACATCTACCAAACTTTGAAAAACCATTTTTTCAAAG
Found at i:36386 original size:519 final size:519
Alignment explanation
Indices: 35407--36443 Score: 2002
Period size: 519 Copynumber: 2.0 Consensus size: 519
35397 TCCACCTTTG
*
35407 AAACAAAGTGCTTTGTTTGTAGTACCCCACAGATATATGAGGATCCATTTGACTGCTTCCCAATG
1 AAACAAAGTGCTTTATTTGTAGTACCCCACAGATATATGAGGATCCATTTGACTGCTTCCCAATG
35472 TACCTTGCCTGGATTATTCATGTACCTGCTAACAGCTCCCACTGCATGAGCAATATCTGGTCTGG
66 TACCTTGCCTGGATTATTCATGTACCTGCTAACAGCTCCCACTGCATGAGCAATATCTGGTCTGG
*
35537 TACATACCATGGCATACATCAGATTTCCAATTGCTGAGGCATACGACACCTTTACCATGTGTGCA
131 TACATACCATGGCATACATCAGACTTCCAATTGCTGAGGCATACGACACCTTTACCATGTGTGCA
*
35602 CGTTCTTCCTCCGTCTTTGGTGACTGTTCTTTGGAGAGTCTAAAATGAACACCTAAATGTGTACT
196 CGTTCTTCCTCCGTCTTTGGTGACTGTTCTTTGGAGAGTCTAAAATGAACACCTAAAGGTGTACT
35667 TACTGGTTTAGTATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGCCTGTGATA
261 TACTGGTTTAGTATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGCCTGTGATA
35732 ACATCAAAGTCCCCGACTTTGTGTCTCTCTTGATCCTCATCCCAAGAATCTATTTTGCAGCACCC
326 ACATCAAAGTCCCCGACTTTGTGTCTCTCTTGATCCTCATCCCAAGAATCTATTTTGCAGCACCC
*
35797 AGATCCTTCATAGCAAACTGCTTCGATAATTTTTGCTTCAAGCGTATAATCTCTTGCATGTCTGA
391 AGATCCTTCATAGCAAACTGCTTCGACAATTTTTGCTTCAAGCGTATAATCTCTTGCATGTCTGA
*
35862 GCCTGCAACGAGCATGTCATCAATGTACAATAATAAAATAATGAAGTTGTTGTCGAACCTCTTA
456 GCCTGCAACGAGCATGTCATCAACGTACAATAATAAAATAATGAAGTTGTTGTCGAACCTCTTA
*
35926 AAACAAAGTGCTTTATTTGTAGTACCCCACATATATATGAGGATCCATTTGACTGCTTCCCAATG
1 AAACAAAGTGCTTTATTTGTAGTACCCCACAGATATATGAGGATCCATTTGACTGCTTCCCAATG
*
35991 TACCTTGCCTGGATTATTCATGTACCTGCTAACAGCTCCCGCTGCATGAGCAATATCTGGTCTGG
66 TACCTTGCCTGGATTATTCATGTACCTGCTAACAGCTCCCACTGCATGAGCAATATCTGGTCTGG
36056 TACATACCATGGCATACATCAGACTTCCAATTGCTGAGGCATACGACACCTTTACCATGTGTGCA
131 TACATACCATGGCATACATCAGACTTCCAATTGCTGAGGCATACGACACCTTTACCATGTGTGCA
36121 CGTTCTTCCTCCGTCTTTGGTGACTGTTCTTTGGAGAGTCTAAAATGAACACCTAAAGGTGTACT
196 CGTTCTTCCTCCGTCTTTGGTGACTGTTCTTTGGAGAGTCTAAAATGAACACCTAAAGGTGTACT
36186 TACTGGTTTAGTATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGCCTGTGATA
261 TACTGGTTTAGTATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGCCTGTGATA
*
36251 ACATCAAAGTCCCCGACTTTGTGTCTCTCTTGATCCTCATCCCAAGAATCTGTTTTGCAGCACCC
326 ACATCAAAGTCCCCGACTTTGTGTCTCTCTTGATCCTCATCCCAAGAATCTATTTTGCAGCACCC
36316 AGATCCTTCATAGCAAACTGCTTCGACAATTTTTGCTTCAAGCGTATAATCTCTTGCATGTCTGA
391 AGATCCTTCATAGCAAACTGCTTCGACAATTTTTGCTTCAAGCGTATAATCTCTTGCATGTCTGA
36381 GCCTGCAACGAGCATGTCATCAACGTACAATAATAAAATAATGAAGTTGTTGTCGAACCTCTT
456 GCCTGCAACGAGCATGTCATCAACGTACAATAATAAAATAATGAAGTTGTTGTCGAACCTCTT
36444 GATGTAGCAA
Statistics
Matches: 510, Mismatches: 8, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
519 510 1.00
ACGTcount: A:0.26, C:0.24, G:0.18, T:0.32
Consensus pattern (519 bp):
AAACAAAGTGCTTTATTTGTAGTACCCCACAGATATATGAGGATCCATTTGACTGCTTCCCAATG
TACCTTGCCTGGATTATTCATGTACCTGCTAACAGCTCCCACTGCATGAGCAATATCTGGTCTGG
TACATACCATGGCATACATCAGACTTCCAATTGCTGAGGCATACGACACCTTTACCATGTGTGCA
CGTTCTTCCTCCGTCTTTGGTGACTGTTCTTTGGAGAGTCTAAAATGAACACCTAAAGGTGTACT
TACTGGTTTAGTATCTTGCATGTTGAACCTGGAGAGTACTTTGTTGATGTACTCAGCCTGTGATA
ACATCAAAGTCCCCGACTTTGTGTCTCTCTTGATCCTCATCCCAAGAATCTATTTTGCAGCACCC
AGATCCTTCATAGCAAACTGCTTCGACAATTTTTGCTTCAAGCGTATAATCTCTTGCATGTCTGA
GCCTGCAACGAGCATGTCATCAACGTACAATAATAAAATAATGAAGTTGTTGTCGAACCTCTTA
Found at i:38636 original size:15 final size:15
Alignment explanation
Indices: 38616--38647 Score: 55
Period size: 15 Copynumber: 2.1 Consensus size: 15
38606 AAAATCTTTC
*
38616 TTTCCCGTTCTTGAT
1 TTTCCCGTTCTGGAT
38631 TTTCCCGTTCTGGAT
1 TTTCCCGTTCTGGAT
38646 TT
1 TT
38648 CGATCTGCCT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 16 1.00
ACGTcount: A:0.06, C:0.25, G:0.16, T:0.53
Consensus pattern (15 bp):
TTTCCCGTTCTGGAT
Found at i:39919 original size:35 final size:35
Alignment explanation
Indices: 39841--39941 Score: 150
Period size: 35 Copynumber: 2.8 Consensus size: 35
39831 ATATTTCAAC
*
39841 AAACATCTACCAAACTTTGAAAAATCATTTTCCAAAG
1 AAACATTTACCAAACTTTG-AAAA-CATTTTCCAAAG
*
39878 AAACATTTAGCAAACTTTGAAAACCATTTT-CAAAG
1 AAACATTTACCAAACTTTGAAAA-CATTTTCCAAAG
39913 AAACATTTACCAAACTTTGAAAACATTTT
1 AAACATTTACCAAACTTTGAAAACATTTT
39942 TTTTAAAGTT
Statistics
Matches: 60, Mismatches: 4, Indels: 3
0.90 0.06 0.04
Matches are distributed among these distances:
34 6 0.10
35 27 0.45
36 10 0.17
37 17 0.28
ACGTcount: A:0.46, C:0.19, G:0.06, T:0.30
Consensus pattern (35 bp):
AAACATTTACCAAACTTTGAAAACATTTTCCAAAG
Found at i:48272 original size:20 final size:20
Alignment explanation
Indices: 48220--48272 Score: 63
Period size: 20 Copynumber: 2.6 Consensus size: 20
48210 TTTTTAAAAT
48220 TCGCAACGCGAATATATAAA
1 TCGCAACGCGAATATATAAA
* *
48240 TCG-AACCACGAATATGTAAA
1 TCGCAA-CGCGAATATATAAA
*
48260 TCGCAACGTGAAT
1 TCGCAACGCGAAT
48273 TTATTTTTAA
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
19 2 0.07
20 23 0.85
21 2 0.07
ACGTcount: A:0.42, C:0.21, G:0.17, T:0.21
Consensus pattern (20 bp):
TCGCAACGCGAATATATAAA
Found at i:48364 original size:20 final size:20
Alignment explanation
Indices: 48336--48379 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
48326 ACCATGTCTA
*
48336 TTTTCGCAATGCGAATCCTC
1 TTTTAGCAATGCGAATCCTC
* *
48356 TTTTAGCAATGTGAATTCTC
1 TTTTAGCAATGCGAATCCTC
48376 TTTT
1 TTTT
48380 CCCTTATCCT
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.20, C:0.20, G:0.14, T:0.45
Consensus pattern (20 bp):
TTTTAGCAATGCGAATCCTC
Found at i:49297 original size:20 final size:20
Alignment explanation
Indices: 49272--49309 Score: 76
Period size: 20 Copynumber: 1.9 Consensus size: 20
49262 TGTGAAATTG
49272 AAGTTCGTGTTGCGAATTAC
1 AAGTTCGTGTTGCGAATTAC
49292 AAGTTCGTGTTGCGAATT
1 AAGTTCGTGTTGCGAATT
49310 TGGAAATTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.24, C:0.13, G:0.26, T:0.37
Consensus pattern (20 bp):
AAGTTCGTGTTGCGAATTAC
Found at i:49323 original size:20 final size:20
Alignment explanation
Indices: 49300--49351 Score: 59
Period size: 20 Copynumber: 2.6 Consensus size: 20
49290 ACAAGTTCGT
49300 GTTGCGAATTTGGAAATTGA
1 GTTGCGAATTTGGAAATTGA
* * ** *
49320 GTTGTGAAATTGGAGTTTGC
1 GTTGCGAATTTGGAAATTGA
49340 GTTGCGAATTTG
1 GTTGCGAATTTG
49352 TTGGTCATTT
Statistics
Matches: 25, Mismatches: 7, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
20 25 1.00
ACGTcount: A:0.23, C:0.06, G:0.33, T:0.38
Consensus pattern (20 bp):
GTTGCGAATTTGGAAATTGA
Found at i:62837 original size:16 final size:16
Alignment explanation
Indices: 62816--62849 Score: 59
Period size: 16 Copynumber: 2.1 Consensus size: 16
62806 TTACTATTCA
*
62816 CGTGAATAGTGAATTT
1 CGTGAATAGTGAAATT
62832 CGTGAATAGTGAAATT
1 CGTGAATAGTGAAATT
62848 CG
1 CG
62850 GTCGGCGATA
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 17 1.00
ACGTcount: A:0.32, C:0.09, G:0.26, T:0.32
Consensus pattern (16 bp):
CGTGAATAGTGAAATT
Found at i:63620 original size:15 final size:16
Alignment explanation
Indices: 63600--63631 Score: 57
Period size: 15 Copynumber: 2.1 Consensus size: 16
63590 TGGCAGATCC
63600 AAATCCAG-ACGGGAA
1 AAATCCAGAACGGGAA
63615 AAATCCAGAACGGGAA
1 AAATCCAGAACGGGAA
63631 A
1 A
63632 GAAAGATTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.50, C:0.19, G:0.25, T:0.06
Consensus pattern (16 bp):
AAATCCAGAACGGGAA
Found at i:69840 original size:27 final size:25
Alignment explanation
Indices: 69794--69844 Score: 66
Period size: 27 Copynumber: 2.0 Consensus size: 25
69784 TTCTGATAAT
69794 TTAAAAAATATTTAAATAAAAAAAC
1 TTAAAAAATATTTAAATAAAAAAAC
**
69819 TTAAAAATATAATTTATTTAAAAAAA
1 TTAAAAA-AT-ATTTAAATAAAAAAA
69845 TCTAAAATTT
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
25 7 0.32
26 2 0.09
27 13 0.59
ACGTcount: A:0.65, C:0.02, G:0.00, T:0.33
Consensus pattern (25 bp):
TTAAAAAATATTTAAATAAAAAAAC
Found at i:72703 original size:28 final size:28
Alignment explanation
Indices: 72672--72727 Score: 85
Period size: 28 Copynumber: 2.0 Consensus size: 28
72662 ATGTGTTTTA
*
72672 TTTTTTGAAATGTTAAATATATATTTAAT
1 TTTTTTGAAAT-TTAAATACATATTTAAT
*
72701 TTTTTTTAAATTTAAATACATATTTAA
1 TTTTTTGAAATTTAAATACATATTTAA
72728 AGAAATTATA
Statistics
Matches: 25, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 15 0.60
29 10 0.40
ACGTcount: A:0.39, C:0.02, G:0.04, T:0.55
Consensus pattern (28 bp):
TTTTTTGAAATTTAAATACATATTTAAT
Found at i:75912 original size:2 final size:2
Alignment explanation
Indices: 75905--75941 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
75895 ATTAAATTAA
75905 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 A
75942 AGCATGATAT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:76090 original size:2 final size:2
Alignment explanation
Indices: 76079--76117 Score: 71
Period size: 2 Copynumber: 20.0 Consensus size: 2
76069 ATACTTATGA
76079 AT AT -T AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
76118 CATAGGACTA
Statistics
Matches: 36, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
1 1 0.03
2 35 0.97
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
AT
Found at i:76236 original size:14 final size:14
Alignment explanation
Indices: 76219--76245 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
76209 ACTAAAGTAA
76219 TGAAATTAAATAAC
1 TGAAATTAAATAAC
76233 TGAAATTAAATAA
1 TGAAATTAAATAA
76246 ATAAAAAGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (14 bp):
TGAAATTAAATAAC
Found at i:76291 original size:25 final size:26
Alignment explanation
Indices: 76240--76303 Score: 87
Period size: 25 Copynumber: 2.5 Consensus size: 26
76230 AACTGAAATT
*
76240 AAAT-AAATAAAAAGTAAATGACATA
1 AAATAAAATATAAAGTAAATGACATA
*
76265 AATTAAAATATAAAGTAAATGAC-TA
1 AAATAAAATATAAAGTAAATGACATA
*
76290 AAATAAAAGATAAA
1 AAATAAAATATAAA
76304 AATATAAAGT
Statistics
Matches: 34, Mismatches: 4, Indels: 2
0.85 0.10 0.05
Matches are distributed among these distances:
25 17 0.50
26 17 0.50
ACGTcount: A:0.67, C:0.03, G:0.08, T:0.22
Consensus pattern (26 bp):
AAATAAAATATAAAGTAAATGACATA
Found at i:76311 original size:33 final size:33
Alignment explanation
Indices: 76269--76334 Score: 107
Period size: 33 Copynumber: 2.0 Consensus size: 33
76259 GACATAAATT
*
76269 AAAATATAAAGTAAATG-ACTAAAATAAAAGATA
1 AAAATATAAAGT-AACGAACTAAAATAAAAGATA
76302 AAAATATAAAGTAACGAACTAAAATAAAAGATA
1 AAAATATAAAGTAACGAACTAAAATAAAAGATA
76335 TCAGAATATA
Statistics
Matches: 31, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
32 3 0.10
33 28 0.90
ACGTcount: A:0.67, C:0.05, G:0.09, T:0.20
Consensus pattern (33 bp):
AAAATATAAAGTAACGAACTAAAATAAAAGATA
Found at i:77454 original size:45 final size:45
Alignment explanation
Indices: 77343--77696 Score: 494
Period size: 45 Copynumber: 7.8 Consensus size: 45
77333 TAAAATCTCC
* * * ** *
77343 TTTGAAAATATCTTGCACTTAAGGTTTTACAGATGACCCAAAGGCTT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGG--T
* * *
77390 TTTGAAAACATCCTGCACTGAAGGGCTTACAGATGACCCAAAGGC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
77435 TTTGAAAACATCATGCACTGAGGGGCTTACAGATGACCCAAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
** * * *
77480 TTTGAAAGTATCATGCACCGAGGGGCTTACAGATGACCTGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
*
77525 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGAGCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
77570 TTTGAAAACATCATGCACT-AAGGGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAA-GGGCTTACAGATGACCCGAAGGT
*
77615 TTTGAAAACATCATGCACTGAATGGCTTACAGATGACCCGAAGGT
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
* *
77660 TTTGAAAACATCATGCACTGTAGGTCTTACAGATGAC
1 TTTGAAAACATCATGCACTGAAGGGCTTACAGATGAC
77697 GTTGAGGCTT
Statistics
Matches: 280, Mismatches: 25, Indels: 6
0.90 0.08 0.02
Matches are distributed among these distances:
44 2 0.01
45 237 0.85
46 2 0.01
47 39 0.14
ACGTcount: A:0.32, C:0.19, G:0.23, T:0.25
Consensus pattern (45 bp):
TTTGAAAACATCATGCACTGAAGGGCTTACAGATGACCCGAAGGT
Found at i:77768 original size:73 final size:73
Alignment explanation
Indices: 77651--78221 Score: 1013
Period size: 73 Copynumber: 7.8 Consensus size: 73
77641 TTACAGATGA
**
77651 CCCGAAGG--TTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACGTTGAGGCTTTAAGATC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
77714 AAAAAGCT
66 AAAAAGCT
77722 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
77787 AAAAAGCT
66 AAAAAGCT
* *
77795 CCCAAAGGCTTTTTGAAAACATCATGCACTGTATGTCTTACAGATGACCCTGAGGCTTTAAGATC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
77860 AAAAAGCT
66 AAAAAGCT
*
77868 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAAAAC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTT-AAGA-
77933 TTCAAAAAGCT
64 -TCAAAAAGCT
*
77944 CCCGGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
78009 AAAAAGCT
66 AAAAAGCT
78017 CCCGAAGG-TTTCTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGAT
1 CCCGAAGGCTTT-TTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGAT
*
78081 CAAAAACCT
65 CAAAAAGCT
78090 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
78155 AAAAAGCT
66 AAAAAGCT
*
78163 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTGAGGCTTT
1 CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTT
78222 TTGAAAACAT
Statistics
Matches: 480, Mismatches: 13, Indels: 12
0.95 0.03 0.02
Matches are distributed among these distances:
71 8 0.02
72 3 0.01
73 392 0.82
74 6 0.01
75 3 0.01
76 68 0.14
ACGTcount: A:0.31, C:0.22, G:0.20, T:0.27
Consensus pattern (73 bp):
CCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATC
AAAAAGCT
Found at i:78237 original size:47 final size:47
Alignment explanation
Indices: 78168--78315 Score: 260
Period size: 47 Copynumber: 3.1 Consensus size: 47
78158 AAGCTCCCGA
78168 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTG
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTG
*
78215 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTA
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTG
* * *
78262 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATAGATGACCTTG
1 AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTG
78309 AGGCTTT
1 AGGCTTT
78316 AAGATCAAAA
Statistics
Matches: 96, Mismatches: 5, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 96 1.00
ACGTcount: A:0.29, C:0.20, G:0.20, T:0.32
Consensus pattern (47 bp):
AGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATAACCCTG
Found at i:78384 original size:73 final size:73
Alignment explanation
Indices: 78261--78670 Score: 667
Period size: 73 Copynumber: 5.6 Consensus size: 73
78251 AGATAACCCT
* *
78261 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATAGATGACCTTGAGGCTTTAAGATCAAAA
1 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAA
78326 AGCTCCCG
66 AGCTCCCG
* *
78334 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTAAAGATGACCCTGAGGCTTTAAAAACTTCA
1 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTT-AAGA--TCA
78399 AAAAGCTCCCG
63 AAAAGCTCCCG
* * *
78410 AAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTACAGATGACCCTGAGGATTTAAGATCAAAA
1 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAA
*
78475 AGCTTCCG
66 AGCTCCCG
* *
78483 GAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGACTTTAAGATCAAAA
1 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAA
78548 AGCTCCCG
66 AGCTCCCG
*
78556 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCTTGAGGCTTTAAGATCAAAA
1 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAA
78621 AGCTCCCG
66 AGCTCCCG
* * *
78629 ATGGCTTTTTGAAAACATCATGCACTATAGGGCTTACAGATG
1 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATG
78671 TTGGAAATAG
Statistics
Matches: 313, Mismatches: 21, Indels: 6
0.92 0.06 0.02
Matches are distributed among these distances:
73 242 0.77
74 3 0.01
75 3 0.01
76 65 0.21
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (73 bp):
AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAA
AGCTCCCG
Found at i:78616 original size:146 final size:148
Alignment explanation
Indices: 78261--78670 Score: 664
Period size: 149 Copynumber: 2.8 Consensus size: 148
78251 AGATAACCCT
*
78261 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATAGATGACCTTGAGGCTTTAAGATCAAAA
1 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCTTGAGGCTTTAAGATCAAAA
* * * *
78326 AGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTAAAGATGACCCTGAGGCTTTAA
66 AGCTTCCGGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGACTTTAA
78391 AAACTTCAAAAAGCTCCCG
131 AAAC-TCAAAAAGCTCCCG
* * * *
78410 AAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTACAGATGACCCTGAGGATTTAAGATCAAAA
1 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCTTGAGGCTTTAAGATCAAAA
78475 AGCTTCCGGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGACTTT-A
66 AGCTTCCGGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGACTTTAA
*
78539 AGA-TCAAAAAGCTCCCG
131 AAACTCAAAAAGCTCCCG
78556 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCTTGAGGCTTTAAGATCAAAA
1 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCTTGAGGCTTTAAGATCAAAA
* * *
78621 AGC-TCCCGATGGCTTTTTGAAAACATCATGCACTATAGGGCTTACAGATG
66 AGCTTCCGGA-GGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATG
78671 TTGGAAATAG
Statistics
Matches: 243, Mismatches: 17, Indels: 5
0.92 0.06 0.02
Matches are distributed among these distances:
145 5 0.02
146 116 0.48
148 3 0.01
149 119 0.49
ACGTcount: A:0.32, C:0.20, G:0.20, T:0.27
Consensus pattern (148 bp):
AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCTTGAGGCTTTAAGATCAAAA
AGCTTCCGGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGACTTTAA
AAACTCAAAAAGCTCCCG
Found at i:78667 original size:462 final size:462
Alignment explanation
Indices: 77799--78669 Score: 1582
Period size: 462 Copynumber: 1.9 Consensus size: 462
77789 AAAGCTCCCA
*
77799 AAGGCTTTTTGAAAACATCATGCACTGTATGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAA
1 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAA
*
77864 AGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAA
66 AGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTAAAGATGACCCTGAGGCTTTAA
* *
77929 AAACTTCAAAAAGCTCCCGGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCC
131 AAACTTCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTACAGATGACCC
*
77994 TGAGGCTTTAAGATCAAAAAGCTCCCGAAGGTTTCTTGAAAACATCATGCACTGTAGGTCTTACA
196 TGAGGATTTAAGATCAAAAAGCTCCCGAAGGTTTCTTGAAAACATCATGCACTGTAGGTCTTACA
*
78059 GATGACCCTGAGGCTTTAAGATCAAAAACCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAG
261 GATGACCCTGAGACTTTAAGATCAAAAACCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAG
78124 GTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATG
326 GTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATG
* *
78189 CACTGTAGGTCTTACAGATAACCCTGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGA
391 CACTATAGGGCTTACAGATAACCCTGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGA
78254 TAACCCT
456 TAACCCT
* *
78261 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTATAGATGACCTTGAGGCTTTAAGATCAAAA
1 AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAA
78326 AGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTAAAGATGACCCTGAGGCTTTAA
66 AGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTAAAGATGACCCTGAGGCTTTAA
*
78391 AAACTTCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCCTGCACTGCAGGTCTTACAGATGACCC
131 AAACTTCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTACAGATGACCC
* *
78456 TGAGGATTTAAGATCAAAAAGCTTCCGGAGGCTTT-TTGAAAACATCATGCACTGTAGGTCTTAC
196 TGAGGATTTAAGATCAAAAAGCTCCCGAAGG-TTTCTTGAAAACATCATGCACTGTAGGTCTTAC
*
78520 AGATGACCCTGAGACTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTA
260 AGATGACCCTGAGACTTTAAGATCAAAAACCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTA
* *
78585 GGTCTTACAGATGACCTTGAGGCTTTAAGATCAAAAAGCTCCCGATGGCTTTTTGAAAACATCAT
325 GGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCAT
78650 GCACTATAGGGCTTACAGAT
390 GCACTATAGGGCTTACAGAT
78670 GTTGGAAATA
Statistics
Matches: 392, Mismatches: 16, Indels: 2
0.96 0.04 0.00
Matches are distributed among these distances:
462 389 0.99
463 3 0.01
ACGTcount: A:0.32, C:0.21, G:0.20, T:0.27
Consensus pattern (462 bp):
AAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGATGACCCTGAGGCTTTAAGATCAAAA
AGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTAAAGATGACCCTGAGGCTTTAA
AAACTTCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATGCACTGCAGGTCTTACAGATGACCC
TGAGGATTTAAGATCAAAAAGCTCCCGAAGGTTTCTTGAAAACATCATGCACTGTAGGTCTTACA
GATGACCCTGAGACTTTAAGATCAAAAACCTCCCGAAGGCTTTTTGAAAACATCATGCACTGTAG
GTCTTACAGATGACCCTGAGGCTTTAAGATCAAAAAGCTCCCGAAGGCTTTTTGAAAACATCATG
CACTATAGGGCTTACAGATAACCCTGAGGCTTTTTGAAAACATCATGCACTGTAGGTCTTACAGA
TAACCCT
Found at i:89368 original size:24 final size:24
Alignment explanation
Indices: 89308--89372 Score: 62
Period size: 24 Copynumber: 2.8 Consensus size: 24
89298 TTAAAAGATT
* * *
89308 AAAATTAAAGT-ATTGAAAAATAT
1 AAAACTAAAGTAATTAAAAAATAA
* * *
89331 AAAGCAAAAATAATTAAAAAATAA
1 AAAACTAAAGTAATTAAAAAATAA
89355 AAAACTAAAGTAA-TAAAA
1 AAAACTAAAGTAATTAAAA
89373 TTAAATAACT
Statistics
Matches: 32, Mismatches: 9, Indels: 2
0.74 0.21 0.05
Matches are distributed among these distances:
23 12 0.38
24 20 0.62
ACGTcount: A:0.69, C:0.03, G:0.06, T:0.22
Consensus pattern (24 bp):
AAAACTAAAGTAATTAAAAAATAA
Found at i:89377 original size:14 final size:13
Alignment explanation
Indices: 89349--89420 Score: 56
Period size: 14 Copynumber: 5.2 Consensus size: 13
89339 AATAATTAAA
*
89349 AAATAA-AAAACT
1 AAATAATAAAATT
89361 AAAGTAATAAAATT
1 AAA-TAATAAAATT
*
89375 AAATAACTGAAATT
1 AAATAA-TAAAATT
*
89389 AAATAAATAAAAAGT
1 AAAT-AAT-AAAATT
*
89404 AAATGATATAAATT
1 AAATAATA-AAATT
89418 AAA
1 AAA
89421 ATATAAGGTA
Statistics
Matches: 48, Mismatches: 6, Indels: 10
0.75 0.09 0.16
Matches are distributed among these distances:
12 3 0.06
13 7 0.15
14 28 0.58
15 10 0.21
ACGTcount: A:0.67, C:0.03, G:0.06, T:0.25
Consensus pattern (13 bp):
AAATAATAAAATT
Found at i:89431 original size:26 final size:25
Alignment explanation
Indices: 89389--89452 Score: 69
Period size: 26 Copynumber: 2.6 Consensus size: 25
89379 AACTGAAATT
*
89389 AAAT-AAATAAAAAGTAAATGA-TA
1 AAATAAAATATAAAGTAAATGACTA
*
89412 TAAATTAAAATATAAGGTAAATGACTA
1 -AAA-TAAAATATAAAGTAAATGACTA
*
89439 AAATAAAAGATAAA
1 AAATAAAATATAAA
89453 AATATAAAGT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
24 3 0.09
25 10 0.30
26 18 0.55
27 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.09, T:0.23
Consensus pattern (25 bp):
AAATAAAATATAAAGTAAATGACTA
Found at i:89440 original size:25 final size:26
Alignment explanation
Indices: 89366--89452 Score: 74
Period size: 25 Copynumber: 3.5 Consensus size: 26
89356 AAACTAAAGT
* * *
89366 AATAAAAT-TAAA-TAACTGAAATTA
1 AATAAAATATAAAGTAAATGATATAA
*
89390 AAT-AAATAAAAAGTAAATGATATAA
1 AATAAAATATAAAGTAAATGATATAA
* * *
89415 ATTAAAATATAAGGTAAATGA-CTAA
1 AATAAAATATAAAGTAAATGATATAA
*
89440 AATAAAAGATAAA
1 AATAAAATATAAA
89453 AATATAAAGT
Statistics
Matches: 49, Mismatches: 11, Indels: 5
0.75 0.17 0.08
Matches are distributed among these distances:
23 4 0.08
24 6 0.12
25 24 0.49
26 15 0.31
ACGTcount: A:0.64, C:0.02, G:0.08, T:0.25
Consensus pattern (26 bp):
AATAAAATATAAAGTAAATGATATAA
Found at i:89472 original size:33 final size:33
Alignment explanation
Indices: 89418--89483 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
89408 GATATAAATT
* *
89418 AAAATATAAGGTAAATGACTAAAATAAAAGATA
1 AAAATATAAAGTAAACGACTAAAATAAAAGATA
89451 AAAATATAAAGT-AACGAACTAAAATAAAAGATA
1 AAAATATAAAGTAAACG-ACTAAAATAAAAGATA
89484 TCAGAATATA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
32 3 0.10
33 27 0.90
ACGTcount: A:0.65, C:0.05, G:0.11, T:0.20
Consensus pattern (33 bp):
AAAATATAAAGTAAACGACTAAAATAAAAGATA
Found at i:90788 original size:21 final size:21
Alignment explanation
Indices: 90759--90837 Score: 64
Period size: 21 Copynumber: 4.0 Consensus size: 21
90749 ATCTGCAAAA
*
90759 AAATTAATTAAATAAAATATT
1 AAATAAATTAAATAAAATATT
*
90780 AAATAAATTAAAT---A-CTT
1 AAATAAATTAAATAAAATATT
90797 AAATAAATTAAATACAAAATATT
1 AAATAAATTAAAT--AAAATATT
90820 -AA-AAA-TATAATAAAATAT
1 AAATAAATTA-AATAAAATAT
90838 ACCTTAAACA
Statistics
Matches: 48, Mismatches: 3, Indels: 16
0.72 0.04 0.24
Matches are distributed among these distances:
17 15 0.31
18 1 0.02
19 7 0.15
20 2 0.04
21 18 0.38
22 3 0.06
23 2 0.04
ACGTcount: A:0.65, C:0.03, G:0.00, T:0.33
Consensus pattern (21 bp):
AAATAAATTAAATAAAATATT
Found at i:90789 original size:9 final size:9
Alignment explanation
Indices: 90759--90810 Score: 56
Period size: 9 Copynumber: 6.1 Consensus size: 9
90749 ATCTGCAAAA
*
90759 AAATTAATT
1 AAATTAAAT
90768 AAA-TAAA-
1 AAATTAAAT
*
90775 ATATTAAAT
1 AAATTAAAT
90784 AAATTAAAT
1 AAATTAAAT
*
90793 -ACTTAAAT
1 AAATTAAAT
90801 AAATTAAAT
1 AAATTAAAT
90810 A
1 A
90811 CAAAATATTA
Statistics
Matches: 35, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
7 2 0.06
8 14 0.40
9 19 0.54
ACGTcount: A:0.63, C:0.02, G:0.00, T:0.35
Consensus pattern (9 bp):
AAATTAAAT
Found at i:90791 original size:17 final size:17
Alignment explanation
Indices: 90756--90808 Score: 65
Period size: 16 Copynumber: 3.2 Consensus size: 17
90746 TATATCTGCA
* *
90756 AAAAAATTAATTAAA-T
1 AAAATATTAAATAAATT
90772 AAAATATTAAATAAATT
1 AAAATATTAAATAAATT
90789 -AAATACTTAAATAAATT
1 AAAATA-TTAAATAAATT
90806 AAA
1 AAA
90809 TACAAAATAT
Statistics
Matches: 32, Mismatches: 2, Indels: 4
0.84 0.05 0.11
Matches are distributed among these distances:
16 18 0.56
17 12 0.38
18 2 0.06
ACGTcount: A:0.66, C:0.02, G:0.00, T:0.32
Consensus pattern (17 bp):
AAAATATTAAATAAATT
Found at i:90809 original size:17 final size:17
Alignment explanation
Indices: 90762--90811 Score: 75
Period size: 17 Copynumber: 3.0 Consensus size: 17
90752 TGCAAAAAAA
* *
90762 TTAATTAAATAAAATA-
1 TTAAATAAATTAAATAC
90778 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
90795 TTAAATAAATTAAATAC
1 TTAAATAAATTAAATAC
90812 AAAATATTAA
Statistics
Matches: 31, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
16 14 0.45
17 17 0.55
ACGTcount: A:0.60, C:0.04, G:0.00, T:0.36
Consensus pattern (17 bp):
TTAAATAAATTAAATAC
Found at i:91115 original size:12 final size:14
Alignment explanation
Indices: 91082--91116 Score: 61
Period size: 14 Copynumber: 2.5 Consensus size: 14
91072 TGTCAGCATA
*
91082 AGGCGCGCTGTAGG
1 AGGCGCGCTGCAGG
91096 AGGCGCGCTGCAGG
1 AGGCGCGCTGCAGG
91110 AGGCGCG
1 AGGCGCG
91117 ACTTACCCTA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.14, C:0.26, G:0.51, T:0.09
Consensus pattern (14 bp):
AGGCGCGCTGCAGG
Found at i:91974 original size:2 final size:2
Alignment explanation
Indices: 91969--92009 Score: 64
Period size: 2 Copynumber: 20.5 Consensus size: 2
91959 TTTTTTCTTT
* *
91969 AC AC AC AC AC AA AC AC AC AC AC AC AC AC AC AC AC AA AC AC A
1 AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC AC A
92010 TATATATATA
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.56, C:0.44, G:0.00, T:0.00
Consensus pattern (2 bp):
AC
Found at i:111800 original size:32 final size:27
Alignment explanation
Indices: 111732--111797 Score: 132
Period size: 27 Copynumber: 2.4 Consensus size: 27
111722 CCTAAATCCG
111732 AACCCGACCCGAATATCACACTTAAAA
1 AACCCGACCCGAATATCACACTTAAAA
111759 AACCCGACCCGAATATCACACTTAAAA
1 AACCCGACCCGAATATCACACTTAAAA
111786 AACCCGACCCGA
1 AACCCGACCCGA
111798 CCCAAACAAA
Statistics
Matches: 39, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 39 1.00
ACGTcount: A:0.42, C:0.36, G:0.09, T:0.12
Consensus pattern (27 bp):
AACCCGACCCGAATATCACACTTAAAA
Found at i:112202 original size:25 final size:25
Alignment explanation
Indices: 112174--112225 Score: 95
Period size: 25 Copynumber: 2.1 Consensus size: 25
112164 TTTCAACTCC
112174 CTCCAACAAGAGAATTAAATTTCAT
1 CTCCAACAAGAGAATTAAATTTCAT
*
112199 CTCCAACAAGGGAATTAAATTTCAT
1 CTCCAACAAGAGAATTAAATTTCAT
112224 CT
1 CT
112226 ATTATTGATG
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 26 1.00
ACGTcount: A:0.40, C:0.21, G:0.10, T:0.29
Consensus pattern (25 bp):
CTCCAACAAGAGAATTAAATTTCAT
Done.