Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01002631.1 Hibiscus syriacus cultivar Beakdansim tig00005360_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: 119160
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.34
Found at i:1009 original size:21 final size:22
Alignment explanation
Indices: 971--1011 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
961 ATCTTTAATT
*
971 TTAAACTAATTTATAATTTATA
1 TTAAACTAATTTAGAATTTATA
*
993 TTAAA-TATTTTAGAATTTA
1 TTAAACTAATTTAGAATTTA
1012 AATTTTATAA
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 12 0.71
22 5 0.29
ACGTcount: A:0.44, C:0.02, G:0.02, T:0.51
Consensus pattern (22 bp):
TTAAACTAATTTAGAATTTATA
Found at i:15345 original size:51 final size:50
Alignment explanation
Indices: 15288--15445 Score: 183
Period size: 51 Copynumber: 3.1 Consensus size: 50
15278 CTTATATTGG
* *
15288 TGTAAGTGAATAAAATAAACAAGTGTATCACTTAATAAATACTTACACCGA
1 TGTAAGTGAATAAAATAAA-AAGTGTAACACTTAACAAATACTTACACCGA
* * ** * *
15339 TATAAGTGAATAAAACAAAAAAGTGTAACACTTAACGCATAC-TACATCGG
1 TGTAAGTGAATAAAA-TAAAAAGTGTAACACTTAACAAATACTTACACCGA
* * * *
15389 TGTAAGTAAATAAAATAAAAAGTGTAGCACTTAACATATACTTATACCGA
1 TGTAAGTGAATAAAATAAAAAGTGTAACACTTAACAAATACTTACACCGA
15439 TGTAAGT
1 TGTAAGT
15446 ATACACATCT
Statistics
Matches: 88, Mismatches: 17, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
49 22 0.25
50 31 0.35
51 32 0.36
52 3 0.03
ACGTcount: A:0.47, C:0.13, G:0.13, T:0.27
Consensus pattern (50 bp):
TGTAAGTGAATAAAATAAAAAGTGTAACACTTAACAAATACTTACACCGA
Found at i:15422 original size:49 final size:50
Alignment explanation
Indices: 15262--15432 Score: 182
Period size: 51 Copynumber: 3.4 Consensus size: 50
15252 CAAAAAAATA
* * * *
15262 TAGCACTTAACTCAAACTTATATTGGTGTAAGTGAATAAAATAAACAAGTG
1 TAGCACTTAACACATACTTACATCGGTGTAAGTGAATAAAATAAA-AAGTG
* * * * * * *
15313 TATCACTTAATAAATACTTACACCGATATAAGTGAATAAAACAAAAAAGTG
1 TAGCACTTAACACATACTTACATCGGTGTAAGTGAATAAAA-TAAAAAGTG
* * *
15364 TAACACTTAACGCATAC-TACATCGGTGTAAGTAAATAAAATAAAAAGTG
1 TAGCACTTAACACATACTTACATCGGTGTAAGTGAATAAAATAAAAAGTG
*
15413 TAGCACTTAACATATACTTA
1 TAGCACTTAACACATACTTA
15433 TACCGATGTA
Statistics
Matches: 95, Mismatches: 23, Indels: 5
0.77 0.19 0.04
Matches are distributed among these distances:
49 22 0.23
50 21 0.22
51 49 0.52
52 3 0.03
ACGTcount: A:0.46, C:0.14, G:0.12, T:0.27
Consensus pattern (50 bp):
TAGCACTTAACACATACTTACATCGGTGTAAGTGAATAAAATAAAAAGTG
Found at i:15663 original size:64 final size:64
Alignment explanation
Indices: 15541--15671 Score: 149
Period size: 64 Copynumber: 2.0 Consensus size: 64
15531 AAAAATTTAA
* * * * * *
15541 AAATAATAAAAAATATATATTAAGTTATTTGTATACAAATTTTATTAAATATATATATAAATTAT
1 AAATAATAAAAAATATATATTAAGTTATTTATATACAAAATATAATAAATAGAAATAT-AATTAT
* * *
15606 AAATAATAGAAAAT-TATATTAATTTATTTATGTA-AAAATATAATAAATTAGAAATATAATTAT
1 AAATAATAAAAAATATATATTAAGTTATTTATATACAAAATATAATAAA-TAGAAATATAATTAT
15669 AAA
1 AAA
15672 ATTAATTAAT
Statistics
Matches: 56, Mismatches: 9, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
63 19 0.34
64 24 0.43
65 13 0.23
ACGTcount: A:0.55, C:0.01, G:0.04, T:0.40
Consensus pattern (64 bp):
AAATAATAAAAAATATATATTAAGTTATTTATATACAAAATATAATAAATAGAAATATAATTAT
Found at i:21370 original size:71 final size:71
Alignment explanation
Indices: 21235--21370 Score: 182
Period size: 71 Copynumber: 1.9 Consensus size: 71
21225 GTTTAACAAG
* * * * * *
21235 TAACTAGTTTAATGAGCTACGAGTCGAGTTGAGCAACAAGTTTTTTAACGAGCACGAATTGAGCA
1 TAACGAGTTTAACGACCAACGAGTCGAGTTGAGCAACAACTTTTTTAACGAGCACGAATCGAGCA
21300 AAAATT
66 AAAATT
* * * *
21306 TAACGAGTTTAACGACCAACGATTCGAGTTGAGCAATAACTTTTTTAACGAGCATGCATCGAGCA
1 TAACGAGTTTAACGACCAACGAGTCGAGTTGAGCAACAACTTTTTTAACGAGCACGAATCGAGCA
21371 CTGCACAACT
Statistics
Matches: 55, Mismatches: 10, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
71 55 1.00
ACGTcount: A:0.35, C:0.17, G:0.21, T:0.27
Consensus pattern (71 bp):
TAACGAGTTTAACGACCAACGAGTCGAGTTGAGCAACAACTTTTTTAACGAGCACGAATCGAGCA
AAAATT
Found at i:24078 original size:65 final size:65
Alignment explanation
Indices: 23956--24113 Score: 248
Period size: 65 Copynumber: 2.5 Consensus size: 65
23946 TTGATTCTTG
* * * *
23956 AGTTAGGCATATATTTGCTATACAC--AAAAAACATATATTATTGCTGCAAGGTATATCATATGA
1 AGTTAGGCAGATATTTGCCATACACAAAAAAAACATATATTACTACTGCAAGGTATATCATATGA
*
24019 AGTTAGGCAGATATTTGCCATACACAAAAAAAACATATATTACTATTGCAAGGTATATCATATGA
1 AGTTAGGCAGATATTTGCCATACACAAAAAAAACATATATTACTACTGCAAGGTATATCATATGA
*
24084 AGTTAGGCAGATATTTTCCATACACAAAAA
1 AGTTAGGCAGATATTTGCCATACACAAAAA
24114 GAAGCTCAAC
Statistics
Matches: 87, Mismatches: 6, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
63 23 0.26
65 64 0.74
ACGTcount: A:0.42, C:0.14, G:0.14, T:0.30
Consensus pattern (65 bp):
AGTTAGGCAGATATTTGCCATACACAAAAAAAACATATATTACTACTGCAAGGTATATCATATGA
Found at i:26875 original size:12 final size:12
Alignment explanation
Indices: 26857--26889 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
26847 ACAATCAACA
26857 ACACCCTCAGTT
1 ACACCCTCAGTT
*
26869 GCACCCTCAGTT
1 ACACCCTCAGTT
26881 ACACCCTCA
1 ACACCCTCA
26890 CCAGCACCCT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.24, C:0.45, G:0.09, T:0.21
Consensus pattern (12 bp):
ACACCCTCAGTT
Found at i:30506 original size:59 final size:60
Alignment explanation
Indices: 30437--30590 Score: 179
Period size: 59 Copynumber: 2.6 Consensus size: 60
30427 GTTGGATGGA
* ** * *
30437 TTTGAGGATGAAATTGGAATAT-TC-AAAAGTTTGGGTACTAATTTAGAAAGAGGGTCATAG
1 TTTGAGGATGAAATT--AAAATGTCAAAAAGTTTAAGAACTAATTTAGAAAGAGAGTCATAG
*
30497 TTT-AGGATGAAATTAAAATGTCAAAAAGTTTAAGAACTAATTTAGAATGAGAGTCATAG
1 TTTGAGGATGAAATTAAAATGTCAAAAAGTTTAAGAACTAATTTAGAAAGAGAGTCATAG
* * **
30556 TTTGGGGATGAAATTATAATGTTTAAAAGTTTAAG
1 TTTGAGGATGAAATTAAAATGTCAAAAAGTTTAAG
30591 GATCAATTTA
Statistics
Matches: 81, Mismatches: 10, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
57 4 0.05
58 2 0.02
59 45 0.56
60 30 0.37
ACGTcount: A:0.40, C:0.04, G:0.23, T:0.33
Consensus pattern (60 bp):
TTTGAGGATGAAATTAAAATGTCAAAAAGTTTAAGAACTAATTTAGAAAGAGAGTCATAG
Found at i:30586 original size:60 final size:60
Alignment explanation
Indices: 30437--30619 Score: 190
Period size: 60 Copynumber: 3.1 Consensus size: 60
30427 GTTGGATGGA
** * * ** * * *
30437 TTTGAGGATGAAATTGGAATATTCAAAAGTTTGGGTACTAATTTAGAAAGAGGGTCATAG
1 TTTGAGGATGAAATTAAAATGTTAAAAAGTTTAAGAACTAATTTAGAATGAGAGTCATAG
*
30497 TTT-AGGATGAAATTAAAATGTCAAAAAGTTTAAGAACTAATTTAGAATGAGAGTCATAG
1 TTTGAGGATGAAATTAAAATGTTAAAAAGTTTAAGAACTAATTTAGAATGAGAGTCATAG
* * * * * * *
30556 TTTGGGGATGAAATTATAATGTTTAAAAGTTTAAGGA-TCAATTTAAAATGAGAATTATAG
1 TTTGAGGATGAAATTAAAATGTTAAAAAGTTTAAGAACT-AATTTAGAATGAGAGTCATAG
30616 TTTG
1 TTTG
30620 GGGGCATATG
Statistics
Matches: 103, Mismatches: 18, Indels: 4
0.82 0.14 0.03
Matches are distributed among these distances:
59 50 0.49
60 53 0.51
ACGTcount: A:0.40, C:0.04, G:0.22, T:0.34
Consensus pattern (60 bp):
TTTGAGGATGAAATTAAAATGTTAAAAAGTTTAAGAACTAATTTAGAATGAGAGTCATAG
Found at i:31095 original size:13 final size:13
Alignment explanation
Indices: 31079--31105 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
31069 AAAAAATAGT
31079 ATTATTTTTATAA
1 ATTATTTTTATAA
31092 ATTATTTTTATAA
1 ATTATTTTTATAA
31105 A
1 A
31106 AACACTACAA
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:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (13 bp):
ATTATTTTTATAA
Found at i:34512 original size:31 final size:31
Alignment explanation
Indices: 34459--34535 Score: 75
Period size: 31 Copynumber: 2.5 Consensus size: 31
34449 AGAGGTCATA
* * *
34459 AAGATCCTCGGTAAA-TGTCCATAGATCCCG
1 AAGAACCTAGGTAAACTATCCATAGATCCCG
* * *
34489 AAGAACCTAGGTAAACTATCCATATATTCCT
1 AAGAACCTAGGTAAACTATCCATAGATCCCG
* *
34520 TAGAACATAGGTAAAC
1 AAGAACCTAGGTAAAC
34536 CCTCGACTCT
Statistics
Matches: 38, Mismatches: 8, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
30 13 0.34
31 25 0.66
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.25
Consensus pattern (31 bp):
AAGAACCTAGGTAAACTATCCATAGATCCCG
Found at i:40365 original size:2 final size:2
Alignment explanation
Indices: 40358--40384 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
40348 GTTTTATTAC
40358 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 A
40385 ATCGGACCAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42803 original size:11 final size:11
Alignment explanation
Indices: 42787--42812 Score: 52
Period size: 11 Copynumber: 2.4 Consensus size: 11
42777 TTATATGTAA
42787 TATTAATATAT
1 TATTAATATAT
42798 TATTAATATAT
1 TATTAATATAT
42809 TATT
1 TATT
42813 TTAATAAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 15 1.00
ACGTcount: A:0.42, C:0.00, G:0.00, T:0.58
Consensus pattern (11 bp):
TATTAATATAT
Found at i:42910 original size:42 final size:42
Alignment explanation
Indices: 42858--42972 Score: 121
Period size: 42 Copynumber: 2.8 Consensus size: 42
42848 TAATTTTAAC
*
42858 AATATAATATAATATTTTATTTTTATAATTATATTATTA-TAA
1 AATATAATATAATATTTTATTTTTATAA-TAAATTATTAGTAA
* ** *
42900 TATATAATATAATATAATATTTTAATAATAAATTATTAGTAA
1 AATATAATATAATATTTTATTTTTATAATAAATTATTAGTAA
* *
42942 AAT-TAATATTAT-TTATTAATTTTATAA-AAAT
1 AATATAATATAATATT-TTATTTTTATAATAAAT
42973 AATATTATTG
Statistics
Matches: 60, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
40 5 0.08
41 26 0.43
42 29 0.48
ACGTcount: A:0.49, C:0.00, G:0.01, T:0.50
Consensus pattern (42 bp):
AATATAATATAATATTTTATTTTTATAATAAATTATTAGTAA
Found at i:43138 original size:36 final size:39
Alignment explanation
Indices: 43054--43149 Score: 103
Period size: 41 Copynumber: 2.5 Consensus size: 39
43044 TAATTTTTAA
43054 TATTTTAATAAATAATTAATATAATTAAAAATATATTTTTC
1 TATTTTAAT-AATAATTAATATAATTAAAAATATA-TTTTC
* * *
43095 TCATTTTAATAATATTTAATATAATTTATAATA-A-TTT-
1 T-ATTTTAATAATAATTAATATAATTAAAAATATATTTTC
43132 TATTTTAATAA-AA-TAATA
1 TATTTTAATAATAATTAATA
43150 ATCATAATAT
Statistics
Matches: 50, Mismatches: 4, Indels: 9
0.79 0.06 0.14
Matches are distributed among these distances:
34 5 0.10
35 1 0.02
36 10 0.20
37 1 0.02
38 3 0.06
40 1 0.02
41 21 0.42
42 8 0.16
ACGTcount: A:0.48, C:0.02, G:0.00, T:0.50
Consensus pattern (39 bp):
TATTTTAATAATAATTAATATAATTAAAAATATATTTTC
Found at i:43165 original size:14 final size:14
Alignment explanation
Indices: 43148--43203 Score: 60
Period size: 14 Copynumber: 3.9 Consensus size: 14
43138 AATAAAATAA
*
43148 TAATCATAATATTT
1 TAATTATAATATTT
* *
43162 TAATTTATAAAATTG
1 TAA-TTATAATATTT
43177 TAGA-TATAATATTT
1 TA-ATTATAATATTT
43191 TAATTATAATATT
1 TAATTATAATATT
43204 GATATAAATA
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
13 1 0.03
14 22 0.65
15 10 0.29
16 1 0.03
ACGTcount: A:0.45, C:0.02, G:0.04, T:0.50
Consensus pattern (14 bp):
TAATTATAATATTT
Found at i:43171 original size:29 final size:29
Alignment explanation
Indices: 43121--43199 Score: 90
Period size: 29 Copynumber: 2.7 Consensus size: 29
43111 TAATATAATT
*
43121 TATAATAATTTTATTTTAATAAAATAATA-A
1 TATAAT-ATTTTAATTT-ATAAAATAATAGA
**
43151 TCATAATATTTTAATTTATAAAATTGTAGA
1 T-ATAATATTTTAATTTATAAAATAATAGA
43181 TATAATATTTTAA-TTATAA
1 TATAATATTTTAATTTATAA
43200 TATTGATATA
Statistics
Matches: 44, Mismatches: 3, Indels: 6
0.83 0.06 0.11
Matches are distributed among these distances:
28 6 0.14
29 21 0.48
30 12 0.27
31 5 0.11
ACGTcount: A:0.48, C:0.01, G:0.03, T:0.48
Consensus pattern (29 bp):
TATAATATTTTAATTTATAAAATAATAGA
Found at i:43214 original size:29 final size:29
Alignment explanation
Indices: 43153--43218 Score: 89
Period size: 29 Copynumber: 2.3 Consensus size: 29
43143 AATAATAATC
*
43153 ATAATATTTTAATTTATAAAATTGTAGAT
1 ATAATATTTTAATTTATAAAATTGTAGAA
* *
43182 ATAATATTTTAA-TTATAATATTGATATAA
1 ATAATATTTTAATTTATAAAATTG-TAGAA
43211 ATAATATT
1 ATAATATT
43219 AAATAATTAT
Statistics
Matches: 33, Mismatches: 3, Indels: 2
0.87 0.08 0.05
Matches are distributed among these distances:
28 10 0.30
29 23 0.70
ACGTcount: A:0.47, C:0.00, G:0.05, T:0.48
Consensus pattern (29 bp):
ATAATATTTTAATTTATAAAATTGTAGAA
Found at i:47843 original size:16 final size:16
Alignment explanation
Indices: 47822--47855 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
47812 ATTATTTCAC
*
47822 TTTAATATTCTAAATT
1 TTTAATATTATAAATT
*
47838 TTTAATTTTATAAATT
1 TTTAATATTATAAATT
47854 TT
1 TT
47856 ACGATCATAA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.35, C:0.03, G:0.00, T:0.62
Consensus pattern (16 bp):
TTTAATATTATAAATT
Found at i:47906 original size:39 final size:38
Alignment explanation
Indices: 47797--47915 Score: 118
Period size: 39 Copynumber: 3.1 Consensus size: 38
47787 TAAATTTTTT
* * * * *
47797 ATTCATAATTCTCAAATTATTTCACTTTAATATTCTAA
1 ATTCTTAATTCTTAAATTATTTTACATTAACATTCTAA
*
47835 ATTTTTAATT-TTATAA--ATTTTACGATCATAACATTCTAA
1 ATTCTTAATTCTTA-AATTATTTTAC-AT--TAACATTCTAA
47874 ATTCTTAATTTCTTAAATTATTTTACATTAACATTCTAA
1 ATTCTTAA-TTCTTAAATTATTTTACATTAACATTCTAA
47913 ATT
1 ATT
47916 ATTTTTAAAA
Statistics
Matches: 66, Mismatches: 7, Indels: 15
0.75 0.08 0.17
Matches are distributed among these distances:
36 6 0.09
37 3 0.05
38 10 0.15
39 31 0.47
40 4 0.06
41 5 0.08
42 7 0.11
ACGTcount: A:0.37, C:0.13, G:0.01, T:0.50
Consensus pattern (38 bp):
ATTCTTAATTCTTAAATTATTTTACATTAACATTCTAA
Found at i:50105 original size:23 final size:23
Alignment explanation
Indices: 50079--50153 Score: 96
Period size: 23 Copynumber: 3.2 Consensus size: 23
50069 AAACATGTTT
50079 GTTTAATATTTGCGAACGTATTC
1 GTTTAATATTTGCGAACGTATTC
*
50102 GTTTAATATTTGCGAACGTGTTC
1 GTTTAATATTTGCGAACGTATTC
** *
50125 GTTTATATATTCACGAATGTATTC
1 GTTTA-ATATTTGCGAACGTATTC
*
50149 ATTTA
1 GTTTA
50154 TCGTTCACGA
Statistics
Matches: 45, Mismatches: 6, Indels: 1
0.87 0.12 0.02
Matches are distributed among these distances:
23 27 0.60
24 18 0.40
ACGTcount: A:0.27, C:0.12, G:0.16, T:0.45
Consensus pattern (23 bp):
GTTTAATATTTGCGAACGTATTC
Found at i:50182 original size:23 final size:23
Alignment explanation
Indices: 50134--50183 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
50124 CGTTTATATA
* *
50134 TTCACGAATGTATTCATTTATCG
1 TTCACGAATATATTCATTTAACG
* *
50157 TTCACGAATATATTCGTTTAAGG
1 TTCACGAATATATTCATTTAACG
50180 TTCA
1 TTCA
50184 TTTAGTGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.28, C:0.16, G:0.14, T:0.42
Consensus pattern (23 bp):
TTCACGAATATATTCATTTAACG
Found at i:50199 original size:22 final size:22
Alignment explanation
Indices: 50173--50220 Score: 60
Period size: 22 Copynumber: 2.2 Consensus size: 22
50163 AATATATTCG
*
50173 TTTAAGGTTCATTTAGTGTTTA
1 TTTAAGGTTCATTTAGTGTTCA
* **
50195 TTTAATGTTTGTTTAGTGTTCA
1 TTTAAGGTTCATTTAGTGTTCA
50217 TTTA
1 TTTA
50221 TATGTTCAAT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.21, C:0.04, G:0.17, T:0.58
Consensus pattern (22 bp):
TTTAAGGTTCATTTAGTGTTCA
Found at i:51455 original size:22 final size:22
Alignment explanation
Indices: 51430--51482 Score: 106
Period size: 22 Copynumber: 2.4 Consensus size: 22
51420 CTCTGGCTGA
51430 GTATCGATACTCTAGTGTTGGG
1 GTATCGATACTCTAGTGTTGGG
51452 GTATCGATACTCTAGTGTTGGG
1 GTATCGATACTCTAGTGTTGGG
51474 GTATCGATA
1 GTATCGATA
51483 TTGACCTGAG
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 31 1.00
ACGTcount: A:0.21, C:0.13, G:0.30, T:0.36
Consensus pattern (22 bp):
GTATCGATACTCTAGTGTTGGG
Found at i:65444 original size:26 final size:26
Alignment explanation
Indices: 65394--65443 Score: 75
Period size: 25 Copynumber: 2.0 Consensus size: 26
65384 GTCAAACATT
65394 TGTTGAAAACCAATTTAGCCGCCCCA
1 TGTTGAAAACCAATTTAGCCGCCCCA
* *
65420 TGTTG-AAATCAATTTAGCTGCCCC
1 TGTTGAAAACCAATTTAGCCGCCCC
65444 CTATTTTGAC
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
25 17 0.77
26 5 0.23
ACGTcount: A:0.28, C:0.28, G:0.16, T:0.28
Consensus pattern (26 bp):
TGTTGAAAACCAATTTAGCCGCCCCA
Found at i:66994 original size:41 final size:41
Alignment explanation
Indices: 66937--67018 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
66927 AAGAGGAAGC
66937 TGGCTCGAAGAATCTGACAATGCACTTGTAGAAATTGAATA
1 TGGCTCGAAGAATCTGACAATGCACTTGTAGAAATTGAATA
66978 TGGCTCGAAGAATCTGACAATGCACTTGTAGAAATTGAATA
1 TGGCTCGAAGAATCTGACAATGCACTTGTAGAAATTGAATA
67019 GCTTTAAGAA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.37, C:0.15, G:0.22, T:0.27
Consensus pattern (41 bp):
TGGCTCGAAGAATCTGACAATGCACTTGTAGAAATTGAATA
Found at i:67488 original size:35 final size:37
Alignment explanation
Indices: 67435--67511 Score: 86
Period size: 35 Copynumber: 2.1 Consensus size: 37
67425 ACAAAAATCC
*
67435 TTAATTACTTGATATTAATGTATCTA-CA-TATAATA
1 TTAATTACTTGATATTAATGTATCTATAATTATAATA
* * * * *
67470 TTAATTATTTTATTTTAATTTATTTATAATTATAATA
1 TTAATTACTTGATATTAATGTATCTATAATTATAATA
67507 TTAAT
1 TTAAT
67512 GCATTGATAA
Statistics
Matches: 34, Mismatches: 6, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
35 21 0.62
36 1 0.03
37 12 0.35
ACGTcount: A:0.39, C:0.04, G:0.03, T:0.55
Consensus pattern (37 bp):
TTAATTACTTGATATTAATGTATCTATAATTATAATA
Found at i:78081 original size:21 final size:21
Alignment explanation
Indices: 78057--78109 Score: 61
Period size: 21 Copynumber: 2.5 Consensus size: 21
78047 ATTCTGACTA
78057 TCGCATTGCGATTTCCCAAAT
1 TCGCATTGCGATTTCCCAAAT
* ** *
78078 TCGCGTTGCGATTTTTCTAAT
1 TCGCATTGCGATTTCCCAAAT
*
78099 TCGCAATGCGA
1 TCGCATTGCGA
78110 ATACGTAAAT
Statistics
Matches: 26, Mismatches: 6, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
21 26 1.00
ACGTcount: A:0.21, C:0.25, G:0.19, T:0.36
Consensus pattern (21 bp):
TCGCATTGCGATTTCCCAAAT
Found at i:78383 original size:18 final size:18
Alignment explanation
Indices: 78360--78395 Score: 56
Period size: 18 Copynumber: 2.0 Consensus size: 18
78350 TCCCCATCTC
78360 CGACGA-AATCAGTCTCCA
1 CGACGATAA-CAGTCTCCA
78378 CGACGATAACAGTCTCCA
1 CGACGATAACAGTCTCCA
78396 TTTCCGACGA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 15 0.88
19 2 0.12
ACGTcount: A:0.33, C:0.33, G:0.17, T:0.17
Consensus pattern (18 bp):
CGACGATAACAGTCTCCA
Found at i:78764 original size:34 final size:34
Alignment explanation
Indices: 78721--78802 Score: 164
Period size: 34 Copynumber: 2.4 Consensus size: 34
78711 TGAAGCCGAG
78721 AATGACTATCGCAACGAGTGAATCGCAACACGAA
1 AATGACTATCGCAACGAGTGAATCGCAACACGAA
78755 AATGACTATCGCAACGAGTGAATCGCAACACGAA
1 AATGACTATCGCAACGAGTGAATCGCAACACGAA
78789 AATGACTATCGCAA
1 AATGACTATCGCAA
78803 TGCGAATTTG
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 48 1.00
ACGTcount: A:0.41, C:0.23, G:0.20, T:0.16
Consensus pattern (34 bp):
AATGACTATCGCAACGAGTGAATCGCAACACGAA
Found at i:78767 original size:20 final size:20
Alignment explanation
Indices: 78742--78823 Score: 77
Period size: 20 Copynumber: 4.4 Consensus size: 20
78732 CAACGAGTGA
78742 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
*
78762 ATCGC-A-ACG--AGTGA--
1 ATCGCAACACGAAAATGACT
78776 ATCGCAACACGAAAATGACT
1 ATCGCAACACGAAAATGACT
** **
78796 ATCGCAATGCGAATTTGACT
1 ATCGCAACACGAAAATGACT
78816 ATCGCAAC
1 ATCGCAAC
78824 GAGAGAATCG
Statistics
Matches: 49, Mismatches: 7, Indels: 12
0.72 0.10 0.18
Matches are distributed among these distances:
14 5 0.10
15 1 0.02
16 7 0.14
18 7 0.14
19 1 0.02
20 28 0.57
ACGTcount: A:0.39, C:0.24, G:0.18, T:0.18
Consensus pattern (20 bp):
ATCGCAACACGAAAATGACT
Found at i:78922 original size:20 final size:20
Alignment explanation
Indices: 78837--78923 Score: 86
Period size: 20 Copynumber: 4.4 Consensus size: 20
78827 AGAATCGCAA
78837 TGCGATTTTCA-TTTCGCGT
1 TGCGATTTTCATTTTCGCGT
** ** *
78856 TGCGATAGTCAAATTCGCAT
1 TGCGATTTTCATTTTCGCGT
** *
78876 TGCGATAGTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
*
78896 TGCGATTTTCATTTTCGTGT
1 TGCGATTTTCATTTTCGCGT
78916 TGCGATTT
1 TGCGATTT
78924 AAAGTTTCAG
Statistics
Matches: 57, Mismatches: 10, Indels: 1
0.84 0.15 0.01
Matches are distributed among these distances:
19 9 0.16
20 48 0.84
ACGTcount: A:0.16, C:0.17, G:0.22, T:0.45
Consensus pattern (20 bp):
TGCGATTTTCATTTTCGCGT
Found at i:78931 original size:20 final size:20
Alignment explanation
Indices: 78888--78931 Score: 61
Period size: 20 Copynumber: 2.2 Consensus size: 20
78878 CGATAGTCAT
** *
78888 TTTCGTGTTGCGATTTTCAT
1 TTTCGTGTTGCGATTTAAAG
78908 TTTCGTGTTGCGATTTAAAG
1 TTTCGTGTTGCGATTTAAAG
78928 TTTC
1 TTTC
78932 AGAAACTATT
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:0.14, C:0.14, G:0.20, T:0.52
Consensus pattern (20 bp):
TTTCGTGTTGCGATTTAAAG
Found at i:80821 original size:20 final size:20
Alignment explanation
Indices: 80796--80921 Score: 156
Period size: 20 Copynumber: 6.6 Consensus size: 20
80786 AGAATAGTTT
*
80796 ACTATCGCAATGCAAAAATG
1 ACTATCGCAATGCGAAAATG
*
80816 ACTATCGCAACGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
80836 ACTATCGCAA--CG-AGA-G
1 ACTATCGCAATGCGAAAATG
80852 A--ATCGCAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
80870 ACTATCGTAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
80890 ACTATCACAATGCGAAAATG
1 ACTATCGCAATGCGAAAATG
*
80910 ACTATCGAAATG
1 ACTATCGCAATG
80922 AAAGAATCGC
Statistics
Matches: 91, Mismatches: 9, Indels: 12
0.81 0.08 0.11
Matches are distributed among these distances:
14 7 0.08
16 4 0.04
17 4 0.04
18 4 0.04
20 72 0.79
ACGTcount: A:0.42, C:0.20, G:0.19, T:0.19
Consensus pattern (20 bp):
ACTATCGCAATGCGAAAATG
Found at i:80865 original size:34 final size:34
Alignment explanation
Indices: 80819--80940 Score: 127
Period size: 34 Copynumber: 3.4 Consensus size: 34
80809 AAAAATGACT
* * *
80819 ATCGCAACGCGAAAATGACTATCGCAACGAGAGA
1 ATCGCAATGCGAAAATGACTATCGAAACGAAAGA
*
80853 ATCGCAATGCGAAAATGACTATCGTAATGCGAAAATGA
1 ATCGCAATGCGAAAATGACTATCG-AA-ACG-AAA-GA
* *
80891 CTATCACAATGCGAAAATGACTATCGAAATGAAAGA
1 --ATCGCAATGCGAAAATGACTATCGAAACGAAAGA
*
80927 ATCGCAATGTGAAA
1 ATCGCAATGCGAAA
80941 TGAAAATCGC
Statistics
Matches: 73, Mismatches: 9, Indels: 12
0.78 0.10 0.13
Matches are distributed among these distances:
34 35 0.48
35 1 0.01
36 4 0.05
37 5 0.07
38 3 0.04
39 2 0.03
40 23 0.32
ACGTcount: A:0.43, C:0.18, G:0.20, T:0.18
Consensus pattern (34 bp):
ATCGCAATGCGAAAATGACTATCGAAACGAAAGA
Found at i:80928 original size:74 final size:74
Alignment explanation
Indices: 80796--80940 Score: 218
Period size: 74 Copynumber: 2.0 Consensus size: 74
80786 AGAATAGTTT
* * *
80796 ACTATCGCAATGCAAAAATGACTATCGCAACGCGAAAATGACTATCGCAACGAGAGAATCGCAAT
1 ACTATCGCAATGCAAAAATGACTATCACAACGCGAAAATGACTATCGAAACGAAAGAATCGCAAT
80861 GCGAAAATG
66 GCGAAAATG
* * * *
80870 ACTATCGTAATGCGAAAATGACTATCACAATGCGAAAATGACTATCGAAATGAAAGAATCGCAAT
1 ACTATCGCAATGCAAAAATGACTATCACAACGCGAAAATGACTATCGAAACGAAAGAATCGCAAT
*
80935 GTGAAA
66 GCGAAA
80941 TGAAAATCGC
Statistics
Matches: 63, Mismatches: 8, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
74 63 1.00
ACGTcount: A:0.43, C:0.19, G:0.19, T:0.19
Consensus pattern (74 bp):
ACTATCGCAATGCAAAAATGACTATCACAACGCGAAAATGACTATCGAAACGAAAGAATCGCAAT
GCGAAAATG
Found at i:81573 original size:42 final size:41
Alignment explanation
Indices: 81474--81578 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 41
81464 CCGACTCACC
* * **
81474 TGTCATCGTTCAAGAGGCCTCCCCTATCATTCAAGAGGCCCC
1 TGTCATCGTTCAAGAGTCC-CCCCTACCATTCAAGAGGCCAA
* ** *
81516 TATCATCCCTCAAGAGTCCCCTCCTACCGTTCAAGAGGCCAA
1 TGTCATCGTTCAAGAGTCCCC-CCTACCATTCAAGAGGCCAA
*
81558 TGTCATCGTTGAAGAGGTCCC
1 TGTCATCGTTCAAGA-GTCCC
81579 TCCCAACATT
Statistics
Matches: 49, Mismatches: 12, Indels: 3
0.77 0.19 0.05
Matches are distributed among these distances:
41 2 0.04
42 42 0.86
43 5 0.10
ACGTcount: A:0.23, C:0.34, G:0.19, T:0.24
Consensus pattern (41 bp):
TGTCATCGTTCAAGAGTCCCCCCTACCATTCAAGAGGCCAA
Found at i:83174 original size:33 final size:34
Alignment explanation
Indices: 83118--83192 Score: 134
Period size: 33 Copynumber: 2.2 Consensus size: 34
83108 ATCATTTCGA
83118 GTTGCGATTTTCATTTTCGCATTGCGATTCACTC
1 GTTGCGATTTTCATTTTCGCATTGCGATTCACTC
*
83152 GTTGCGATTTTCA-TTTCGCATTGCGATTCTCTC
1 GTTGCGATTTTCATTTTCGCATTGCGATTCACTC
83185 GTTGCGAT
1 GTTGCGAT
83193 AGTCGTTTCC
Statistics
Matches: 40, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
33 27 0.68
34 13 0.32
ACGTcount: A:0.13, C:0.23, G:0.20, T:0.44
Consensus pattern (34 bp):
GTTGCGATTTTCATTTTCGCATTGCGATTCACTC
Found at i:83209 original size:20 final size:20
Alignment explanation
Indices: 83184--83272 Score: 117
Period size: 20 Copynumber: 4.5 Consensus size: 20
83174 GCGATTCTCT
*
83184 CGTTGCGATAGTCGTTTCCG
1 CGTTGCGATAGTCATTTCCG
* *
83204 CGTTGCGATAGTCAATTACG
1 CGTTGCGATAGTCATTTCCG
*
83224 CATTGCGATAGTCATTTCCG
1 CGTTGCGATAGTCATTTCCG
*
83244 TGTTGCGATAGTCATATT-CG
1 CGTTGCGATAGTCAT-TTCCG
83264 CGTTGCGAT
1 CGTTGCGAT
83273 TTCCGCGTTG
Statistics
Matches: 59, Mismatches: 9, Indels: 2
0.84 0.13 0.03
Matches are distributed among these distances:
20 57 0.97
21 2 0.03
ACGTcount: A:0.18, C:0.21, G:0.26, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTCCG
Found at i:83242 original size:40 final size:40
Alignment explanation
Indices: 83186--83272 Score: 131
Period size: 40 Copynumber: 2.2 Consensus size: 40
83176 GATTCTCTCG
*
83186 TTGCGATAGTCGTTTCCGCGTTGCGATAGTCA-ATTACGCA
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATT-CGCA
* *
83226 TTGCGATAGTCATTTCCGTGTTGCGATAGTCATATTCGCG
1 TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCGCA
83266 TTGCGAT
1 TTGCGAT
83273 TTCCGCGTTG
Statistics
Matches: 43, Mismatches: 3, Indels: 2
0.90 0.06 0.04
Matches are distributed among these distances:
40 40 0.93
41 3 0.07
ACGTcount: A:0.18, C:0.21, G:0.25, T:0.36
Consensus pattern (40 bp):
TTGCGATAGTCATTTCCGCGTTGCGATAGTCATATTCGCA
Found at i:86636 original size:20 final size:19
Alignment explanation
Indices: 86623--86711 Score: 124
Period size: 20 Copynumber: 4.5 Consensus size: 19
86613 CAGAATCTCG
*
86623 TTGCGATTTACAGATTCGCA
1 TTGCGATTTAC-GAATCGCA
*
86643 TTGCGATTTACGTATTCGCA
1 TTGCGATTTACG-AATCGCA
86663 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACG-AATCGCA
86683 TTGCGATTTACGTAATCGCA
1 TTGCGATTTACG-AATCGCA
86703 TTGCGATTT
1 TTGCGATTT
86712 TCCAAATTCG
Statistics
Matches: 67, Mismatches: 1, Indels: 2
0.96 0.01 0.03
Matches are distributed among these distances:
19 1 0.01
20 66 0.99
ACGTcount: A:0.22, C:0.19, G:0.20, T:0.38
Consensus pattern (19 bp):
TTGCGATTTACGAATCGCA
Found at i:86667 original size:40 final size:40
Alignment explanation
Indices: 86623--86732 Score: 150
Period size: 40 Copynumber: 2.7 Consensus size: 40
86613 CAGAATCTCG
*
86623 TTGCGATTTACAGATTCGCATTGCGATTTACGTATTCGCA
1 TTGCGATTTACAGATTCGCATTGCGATTTACGTAATCGCA
*
86663 TTGCGATTTAC-GTAATCGCATTGCGATTTACGTAATCGCA
1 TTGCGATTTACAG-ATTCGCATTGCGATTTACGTAATCGCA
* * *
86703 TTGCGATTTTCCAAATTCGCGTTGCGATTT
1 TTGCGA-TTTACAGATTCGCATTGCGATTT
86733 TCCTAATTTG
Statistics
Matches: 61, Mismatches: 6, Indels: 5
0.85 0.08 0.07
Matches are distributed among these distances:
39 1 0.02
40 42 0.69
41 18 0.30
ACGTcount: A:0.22, C:0.20, G:0.20, T:0.38
Consensus pattern (40 bp):
TTGCGATTTACAGATTCGCATTGCGATTTACGTAATCGCA
Found at i:86763 original size:21 final size:21
Alignment explanation
Indices: 86737--86779 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
86727 CGATTTTCCT
86737 AATTTGCAAAATCGCAACGCG
1 AATTTGCAAAATCGCAACGCG
** *
86758 AATTTGGGAAATCGCAATGCG
1 AATTTGCAAAATCGCAACGCG
86779 A
1 A
86780 TAGTCAGAAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.37, C:0.19, G:0.23, T:0.21
Consensus pattern (21 bp):
AATTTGCAAAATCGCAACGCG
Found at i:88262 original size:19 final size:18
Alignment explanation
Indices: 88240--88286 Score: 60
Period size: 19 Copynumber: 2.6 Consensus size: 18
88230 TGATTTTCTA
88240 TTATATATATTATTTTA-
1 TTATATATATTATTTTAC
*
88257 TTTTATTATTATTATTTTAC
1 TTATA-TA-TATTATTTTAC
88277 TTATATATAT
1 TTATATATAT
88287 ACAATTTCAT
Statistics
Matches: 25, Mismatches: 2, Indels: 5
0.78 0.06 0.16
Matches are distributed among these distances:
17 4 0.16
18 5 0.20
19 12 0.48
20 4 0.16
ACGTcount: A:0.32, C:0.02, G:0.00, T:0.66
Consensus pattern (18 bp):
TTATATATATTATTTTAC
Found at i:88321 original size:23 final size:24
Alignment explanation
Indices: 88307--88406 Score: 58
Period size: 25 Copynumber: 3.9 Consensus size: 24
88297 TTTTATTTAT
*
88307 TTATCTATTTTATTTTTATTTTTA
1 TTATCTATTTTATTTTTATTTATA
* * *
88331 TTCTCTATTTTTATCTTTTTATCTTCCTT
1 TTATCTA-TTTTA--TTTTTAT-TT-ATA
* * **
88360 TTATTTGTTTTATTCATTTATTTGCA
1 TTATCTATTTTATT--TTTATTTATA
88386 TTATC-ATTTTATTTTTATTTA
1 TTATCTATTTTATTTTTATTTA
88407 GTCATTTACT
Statistics
Matches: 57, Mismatches: 12, Indels: 15
0.68 0.14 0.18
Matches are distributed among these distances:
23 7 0.12
24 6 0.11
25 12 0.21
26 6 0.11
27 9 0.16
28 12 0.21
29 5 0.09
ACGTcount: A:0.18, C:0.10, G:0.02, T:0.70
Consensus pattern (24 bp):
TTATCTATTTTATTTTTATTTATA
Found at i:88344 original size:25 final size:23
Alignment explanation
Indices: 88290--88341 Score: 68
Period size: 23 Copynumber: 2.2 Consensus size: 23
88280 TATATATACA
*
88290 ATTTCATTTTTATTTATTTATCT
1 ATTTTATTTTTATTTATTTATCT
* *
88313 ATTTTATTTTTATTTTTATTCTCT
1 ATTTTATTTTTATTTAT-TTATCT
88337 ATTTT
1 ATTTT
88342 TATCTTTTTA
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
23 15 0.60
24 10 0.40
ACGTcount: A:0.19, C:0.08, G:0.00, T:0.73
Consensus pattern (23 bp):
ATTTTATTTTTATTTATTTATCT
Found at i:88462 original size:27 final size:26
Alignment explanation
Indices: 88432--88497 Score: 69
Period size: 27 Copynumber: 2.4 Consensus size: 26
88422 TATATATGTG
* * *
88432 TTATTATTTTTCTTCGTTTTATTTATT
1 TTATTATTTTTATTCATTTT-TATATT
88459 TTATGTATTTTTATTCATTTTTATATT
1 TTAT-TATTTTTATTCATTTTTATATT
*
88486 TAATTTATTTTT
1 TTA-TTATTTTT
88498 TATCACTTTC
Statistics
Matches: 33, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
27 18 0.55
28 15 0.45
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.73
Consensus pattern (26 bp):
TTATTATTTTTATTCATTTTTATATT
Found at i:88983 original size:30 final size:28
Alignment explanation
Indices: 88960--89014 Score: 83
Period size: 29 Copynumber: 1.9 Consensus size: 28
88950 CGGTGATCGG
88960 TATATTTACCGATCTAACACCGGTCAGAT
1 TATATTTACCGATCTAACACCGGT-AGAT
* *
88989 TATATTTCCCGATCTAACACCCGTAG
1 TATATTTACCGATCTAACACCGGTAG
89015 CAATAAAGCG
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
28 2 0.08
29 22 0.92
ACGTcount: A:0.29, C:0.27, G:0.13, T:0.31
Consensus pattern (28 bp):
TATATTTACCGATCTAACACCGGTAGAT
Found at i:89421 original size:17 final size:18
Alignment explanation
Indices: 89384--89424 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
89374 ATATTATGTA
*
89384 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
89402 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
89419 TTTACT
1 TTTACT
89425 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:91749 original size:35 final size:33
Alignment explanation
Indices: 91710--91794 Score: 91
Period size: 35 Copynumber: 2.5 Consensus size: 33
91700 GTATTTCAGT
91710 TAATTTTGTT-TATTACCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAATA-C--TTATTG
*
91745 TAATTTGGTTATCATTTACCATTTAATACTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATACTTATTG
* *
91780 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
91795 TAAAATTATA
Statistics
Matches: 43, Mismatches: 4, Indels: 8
0.78 0.07 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.56
36 1 0.02
37 2 0.05
38 13 0.30
ACGTcount: A:0.27, C:0.08, G:0.11, T:0.54
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATACTTATTG
Found at i:95709 original size:2 final size:2
Alignment explanation
Indices: 95692--95731 Score: 62
Period size: 2 Copynumber: 20.0 Consensus size: 2
95682 TCAAATATTA
* *
95692 AT AT AT AA AT AA 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
95732 TAATTAAAGA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
2 34 1.00
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (2 bp):
AT
Found at i:97176 original size:3 final size:3
Alignment explanation
Indices: 97170--97200 Score: 62
Period size: 3 Copynumber: 10.3 Consensus size: 3
97160 TTCTTACTAC
97170 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT T
97201 TACTTTTGAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 28 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (3 bp):
TAT
Found at i:97684 original size:20 final size:20
Alignment explanation
Indices: 97661--97833 Score: 100
Period size: 20 Copynumber: 8.5 Consensus size: 20
97651 ATTCGCAACA
*
97661 CGATTCTGACAATCGCATTG
1 CGATTCTGACAATCGCAATG
** **
97681 CGATT-TTCCAAATTCGCGTTG
1 CGATTCTGAC-AA-TCGCAATG
* *
97702 CGATTTTCCGACTATCGCAATG
1 CGA--TTCTGACAATCGCAATG
* *
97724 CGAATATGTA-AATCGCAATG
1 CGATTCTG-ACAATCGCAATG
* * *
97744 CAAATATGTA-AATCGCAATG
1 CGATTCTG-ACAATCGCAATG
* *
97764 CGATTATGACTATCGCAATG
1 CGATTCTGACAATCGCAATG
* *
97784 CGATTCTGACTATCGCAACG
1 CGATTCTGACAATCGCAATG
* * *
97804 AGATTCTGACTATCGCAACG
1 CGATTCTGACAATCGCAATG
97824 CGATTCTGAC
1 CGATTCTGAC
97834 TGTCGCAACA
Statistics
Matches: 125, Mismatches: 21, Indels: 14
0.78 0.13 0.09
Matches are distributed among these distances:
19 3 0.02
20 98 0.78
21 11 0.09
22 9 0.07
23 3 0.02
24 1 0.01
ACGTcount: A:0.29, C:0.23, G:0.19, T:0.29
Consensus pattern (20 bp):
CGATTCTGACAATCGCAATG
Found at i:97725 original size:22 final size:22
Alignment explanation
Indices: 97672--97726 Score: 67
Period size: 21 Copynumber: 2.5 Consensus size: 22
97662 GATTCTGACA
97672 ATCGCATTGCGATTTTCCAAAT
1 ATCGCATTGCGATTTTCCAAAT
* * *
97694 -TCGCGTTGCGATTTTCCGACT
1 ATCGCATTGCGATTTTCCAAAT
*
97715 ATCGCAATGCGA
1 ATCGCATTGCGA
97727 ATATGTAAAT
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
21 18 0.67
22 9 0.33
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (22 bp):
ATCGCATTGCGATTTTCCAAAT
Found at i:97799 original size:40 final size:40
Alignment explanation
Indices: 97711--97841 Score: 131
Period size: 40 Copynumber: 3.3 Consensus size: 40
97701 GCGATTTTCC
* * * * *
97711 GACTATCGCAATGCGAATATGTA-AATCGCAATGCAAATAT
1 GACTATCGCAATGCGATTATG-ACTATCGCAATGCGATTCT
*
97751 GTA-AATCGCAATGCGATTATGACTATCGCAATGCGATTCT
1 G-ACTATCGCAATGCGATTATGACTATCGCAATGCGATTCT
* * * *
97791 GACTATCGCAACGAGATTCTGACTATCGCAACGCGATTCT
1 GACTATCGCAATGCGATTATGACTATCGCAATGCGATTCT
*
97831 GACTGTCGCAA
1 GACTATCGCAA
97842 CACTGAATTT
Statistics
Matches: 76, Mismatches: 12, Indels: 6
0.81 0.13 0.06
Matches are distributed among these distances:
39 2 0.03
40 73 0.96
41 1 0.01
ACGTcount: A:0.32, C:0.22, G:0.20, T:0.26
Consensus pattern (40 bp):
GACTATCGCAATGCGATTATGACTATCGCAATGCGATTCT
Found at i:97834 original size:20 final size:20
Alignment explanation
Indices: 97755--97842 Score: 131
Period size: 20 Copynumber: 4.4 Consensus size: 20
97745 AAATATGTAA
* *
97755 ATCGCAATGCGATTATGACT
1 ATCGCAACGCGATTCTGACT
*
97775 ATCGCAATGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
97795 ATCGCAACGAGATTCTGACT
1 ATCGCAACGCGATTCTGACT
97815 ATCGCAACGCGATTCTGACT
1 ATCGCAACGCGATTCTGACT
*
97835 GTCGCAAC
1 ATCGCAAC
97843 ACTGAATTTC
Statistics
Matches: 63, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
20 63 1.00
ACGTcount: A:0.27, C:0.26, G:0.20, T:0.26
Consensus pattern (20 bp):
ATCGCAACGCGATTCTGACT
Found at i:98695 original size:24 final size:24
Alignment explanation
Indices: 98663--98716 Score: 90
Period size: 24 Copynumber: 2.2 Consensus size: 24
98653 GTATTCGAAA
98663 TTTGATCTTGGTCAATACCCGGAC
1 TTTGATCTTGGTCAATACCCGGAC
* *
98687 TTTGATCTTGGTCAATACTCGGAT
1 TTTGATCTTGGTCAATACCCGGAC
98711 TTTGAT
1 TTTGAT
98717 GATGTTTCAG
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.20, C:0.19, G:0.20, T:0.41
Consensus pattern (24 bp):
TTTGATCTTGGTCAATACCCGGAC
Found at i:98935 original size:14 final size:14
Alignment explanation
Indices: 98906--98942 Score: 56
Period size: 14 Copynumber: 2.6 Consensus size: 14
98896 AGAAAAAGAA
98906 GAAGAAGAAATCCCC
1 GAAGAA-AAATCCCC
*
98921 GAAGAAAAGTCCCC
1 GAAGAAAAATCCCC
98935 GAAGAAAA
1 GAAGAAAA
98943 TGCCACGGGA
Statistics
Matches: 21, Mismatches: 1, Indels: 1
0.91 0.04 0.04
Matches are distributed among these distances:
14 15 0.71
15 6 0.29
ACGTcount: A:0.51, C:0.22, G:0.22, T:0.05
Consensus pattern (14 bp):
GAAGAAAAATCCCC
Found at i:101001 original size:18 final size:18
Alignment explanation
Indices: 100978--101012 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
100968 AGAAAAAGGC
*
100978 AATCAAAATCGCAATCAA
1 AATCAAAATCCCAATCAA
100996 AATCAAAATCCCAATCA
1 AATCAAAATCCCAATCA
101013 CAACCGGCTT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.54, C:0.26, G:0.03, T:0.17
Consensus pattern (18 bp):
AATCAAAATCCCAATCAA
Found at i:101324 original size:140 final size:140
Alignment explanation
Indices: 101072--101341 Score: 504
Period size: 140 Copynumber: 1.9 Consensus size: 140
101062 AAACGTTGTA
*
101072 TTATGTGTAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGATA
1 TTATGTATAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGATA
*
101137 TGATCTGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
101202 TATGTGTATT
131 TATGTGTATT
* *
101212 TTATGTATAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAATTTGAGTTTGAACATTGCTA
1 TTATGTATAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGATA
101277 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
66 TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
101342 CGCAATACGA
Statistics
Matches: 126, Mismatches: 4, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 126 1.00
ACGTcount: A:0.29, C:0.13, G:0.15, T:0.43
Consensus pattern (140 bp):
TTATGTATAAACTTTTAACATTTTCAGTTAGGCATGTATTAGTAACTTGAGTTTGAACATTGATA
TGATATGTTCAGTTGTTATCACTTATTACACATTCATTTGAATATCGCAACGCGAATTTGACTAT
TATGTGTATT
Found at i:101337 original size:20 final size:20
Alignment explanation
Indices: 101312--101585 Score: 167
Period size: 20 Copynumber: 14.7 Consensus size: 20
101302 TTACACATTC
*
101312 ATTTGAATATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
**
101332 ATTTGACTATCGCAATACGA
1 ATTTGACTATCGCAACGCGA
*
101352 ATATGACTATCGCAACGC-A
1 ATTTGACTATCGCAACGCGA
* *
101371 A----A-AATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
* *
101386 ATTTGTCTATCGCAACACGA
1 ATTTGACTATCGCAACGCGA
* *
101406 ATTTGACTATCGCAATGTGA
1 ATTTGACTATCGCAACGCGA
* * *
101426 ATTTGATTATCACAACG-GCT
1 ATTTGACTATCGCAACGCG-A
*
101446 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
101466 A----A--ATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
* * *
101480 ATTTGAGTATTGCAACGTGA
1 ATTTGACTATCGCAACGCGA
* *
101500 ATTTGATTATCGCAACAG-GT
1 ATTTGACTATCGCAAC-GCGA
*
101520 ATTTGACTATCGCAACGAGA
1 ATTTGACTATCGCAACGCGA
* *
101540 A----A--ATCGCAAAGCGT
1 ATTTGACTATCGCAACGCGA
*
101554 ATTAGACTATCGCAACGCGA
1 ATTTGACTATCGCAACGCGA
*
101574 A-TTGACTTTCGC
1 ATTTGACTATCGC
101586 GTTGCGGTTT
Statistics
Matches: 196, Mismatches: 36, Indels: 45
0.71 0.13 0.16
Matches are distributed among these distances:
14 31 0.16
15 3 0.02
16 2 0.01
18 2 0.01
19 13 0.07
20 143 0.73
21 2 0.01
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (20 bp):
ATTTGACTATCGCAACGCGA
Found at i:101472 original size:74 final size:74
Alignment explanation
Indices: 101394--101576 Score: 262
Period size: 74 Copynumber: 2.5 Consensus size: 74
101384 GAATTTGTCT
*
101394 ATCGCAACACGAATTTGACTATCGCAATGTGAATTTGATTATCACAAC-GGCTATTTGACTATCG
1 ATCGCAACACGAATTTGACTATCGCAACGTGAATTTGATTATCACAACAGG-TATTTGACTATCG
101458 CAACGAGAAA
65 CAACGAGAAA
* * * *
101468 ATCGCAACGCGAATTTGAGTATTGCAACGTGAATTTGATTATCGCAACAGGTATTTGACTATCGC
1 ATCGCAACACGAATTTGACTATCGCAACGTGAATTTGATTATCACAACAGGTATTTGACTATCGC
101533 AACGAGAAA
66 AACGAGAAA
* * *
101542 ATCGCAA-AGCGTATTAGACTATCGCAACGCGAATT
1 ATCGCAACA-CGAATTTGACTATCGCAACGTGAATT
101577 GACTTTCGCG
Statistics
Matches: 96, Mismatches: 11, Indels: 4
0.86 0.10 0.04
Matches are distributed among these distances:
74 94 0.98
75 2 0.02
ACGTcount: A:0.34, C:0.20, G:0.20, T:0.26
Consensus pattern (74 bp):
ATCGCAACACGAATTTGACTATCGCAACGTGAATTTGATTATCACAACAGGTATTTGACTATCGC
AACGAGAAA
Found at i:101484 original size:34 final size:34
Alignment explanation
Indices: 101445--101570 Score: 128
Period size: 34 Copynumber: 3.5 Consensus size: 34
101435 TCACAACGGC
101445 TATTTGACTATCGCAACGAGAAAATCGCAACGCG
1 TATTTGACTATCGCAACGAGAAAATCGCAACGCG
* * * *
101479 AATTTGAGTATTGCAACGTGAATTTGATTATCGCAACAG-G
1 TATTTGACTATCGCAACGAGAA----A--ATCGCAAC-GCG
*
101519 TATTTGACTATCGCAACGAGAAAATCGCAAAGCG
1 TATTTGACTATCGCAACGAGAAAATCGCAACGCG
*
101553 TATTAGACTATCGCAACG
1 TATTTGACTATCGCAACG
101571 CGAATTGACT
Statistics
Matches: 74, Mismatches: 10, Indels: 16
0.74 0.10 0.16
Matches are distributed among these distances:
33 1 0.01
34 43 0.58
36 1 0.01
38 1 0.01
40 27 0.36
41 1 0.01
ACGTcount: A:0.35, C:0.19, G:0.21, T:0.25
Consensus pattern (34 bp):
TATTTGACTATCGCAACGAGAAAATCGCAACGCG
Found at i:101524 original size:94 final size:94
Alignment explanation
Indices: 101312--101536 Score: 233
Period size: 94 Copynumber: 2.4 Consensus size: 94
101302 TTACACATTC
* * * * * *
101312 ATTTGAATATCGCAACGCGAATTTGACTATCGCAATAC-G-AATATGACTATCGCAACGCAAAAA
1 ATTTGACTATCGCAAAGTGAATTTGACTATCAC-A-ACGGCTATTTGACTATCGCAACGCAAAAA
*
101375 TCGCAACACGAATTTGTCTATCGCAACACGA
64 TCGCAACACGAATTTGACTATCGCAACACGA
* *
101406 ATTTGACTATCGCAATGTGAATTTGATTATCACAACGGCTATTTGACTATCGCAACG-AGAAAAT
1 ATTTGACTATCGCAAAGTGAATTTGACTATCACAACGGCTATTTGACTATCGCAACGCA-AAAAT
* * * **
101470 CGCAACGCGAATTTGAGTATTGCAACGTGA
65 CGCAACACGAATTTGACTATCGCAACACGA
* * *
101500 ATTTGATTATCGCAACAG-GTATTTGACTATCGCAACG
1 ATTTGACTATCGCAA-AGTGAATTTGACTATCACAACG
101537 AGAAAATCGC
Statistics
Matches: 109, Mismatches: 18, Indels: 8
0.81 0.13 0.06
Matches are distributed among these distances:
92 2 0.02
93 3 0.03
94 103 0.94
95 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.18, T:0.27
Consensus pattern (94 bp):
ATTTGACTATCGCAAAGTGAATTTGACTATCACAACGGCTATTTGACTATCGCAACGCAAAAATC
GCAACACGAATTTGACTATCGCAACACGA
Found at i:101604 original size:20 final size:20
Alignment explanation
Indices: 101575--101632 Score: 71
Period size: 20 Copynumber: 2.9 Consensus size: 20
101565 GCAACGCGAA
*
101575 TTGACTTTCGCGTTGCGGTT
1 TTGACTTTCGCGTTGCGATT
* *
101595 TTGTCTTTCGCATTGCGATT
1 TTGACTTTCGCGTTGCGATT
* *
101615 TTGAGTTTAGCGTTGCGA
1 TTGACTTTCGCGTTGCGA
101633 AAGTGTACCT
Statistics
Matches: 31, Mismatches: 7, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 31 1.00
ACGTcount: A:0.10, C:0.17, G:0.28, T:0.45
Consensus pattern (20 bp):
TTGACTTTCGCGTTGCGATT
Found at i:101791 original size:14 final size:14
Alignment explanation
Indices: 101731--101792 Score: 61
Period size: 14 Copynumber: 4.3 Consensus size: 14
101721 CACAAATAAG
*
101731 AATTATTTACACATC
1 AATT-TTTACAAATC
**
101746 AATATTAAACAAATC
1 AAT-TTTTACAAATC
*
101761 AACTTTTACAAATC
1 AATTTTTACAAATC
*
101775 AATTTTTATAAATC
1 AATTTTTACAAATC
101789 AATT
1 AATT
101793 AAACAAGCAA
Statistics
Matches: 38, Mismatches: 8, Indels: 3
0.78 0.16 0.06
Matches are distributed among these distances:
14 25 0.66
15 12 0.32
16 1 0.03
ACGTcount: A:0.47, C:0.15, G:0.00, T:0.39
Consensus pattern (14 bp):
AATTTTTACAAATC
Found at i:103246 original size:21 final size:21
Alignment explanation
Indices: 103201--103275 Score: 69
Period size: 21 Copynumber: 3.6 Consensus size: 21
103191 TGGGAGTGAC
* * * *
103201 CTCTTCAACGATGACAGTGGC
1 CTCTTGAACGATGAGAGGGGA
*
103222 CTCTTGAACGTTGAGAGGGGA
1 CTCTTGAACGATGAGAGGGGA
** * *
103243 CTCTTGAGGGATGATAGGGGC
1 CTCTTGAACGATGAGAGGGGA
103264 CTCTTGAACGAT
1 CTCTTGAACGAT
103276 AGGGGATGCC
Statistics
Matches: 42, Mismatches: 12, Indels: 0
0.78 0.22 0.00
Matches are distributed among these distances:
21 42 1.00
ACGTcount: A:0.23, C:0.20, G:0.32, T:0.25
Consensus pattern (21 bp):
CTCTTGAACGATGAGAGGGGA
Found at i:103298 original size:42 final size:42
Alignment explanation
Indices: 103200--103302 Score: 102
Period size: 42 Copynumber: 2.5 Consensus size: 42
103190 TTGGGAGTGA
* * *
103200 CCTCTTCAACGATGACAGTGGCCTCTTGAACGTTGAGAGGGG
1 CCTCTTGAACGATGACAGGGGCCTCTTGAACGATGAGAGGGG
* ** *
103242 ACTCTTGAGGGATGATAGGGGCCTCTTGAACGAT-AG-GGGATG
1 CCTCTTGAACGATGACAGGGGCCTCTTGAACGATGAGAGGG--G
*
103284 CCTCTTGAATGATGACAGG
1 CCTCTTGAACGATGACAGG
103303 TGAGTCGGGC
Statistics
Matches: 48, Mismatches: 11, Indels: 4
0.76 0.17 0.06
Matches are distributed among these distances:
40 3 0.06
41 2 0.04
42 43 0.90
ACGTcount: A:0.23, C:0.19, G:0.33, T:0.24
Consensus pattern (42 bp):
CCTCTTGAACGATGACAGGGGCCTCTTGAACGATGAGAGGGG
Found at i:103811 original size:18 final size:19
Alignment explanation
Indices: 103788--103833 Score: 67
Period size: 20 Copynumber: 2.4 Consensus size: 19
103778 GAAACTTAAA
103788 ATCGCAACACG-AATGACT
1 ATCGCAACACGAAATGACT
*
103806 ATCGCAACGCGAAAATGACT
1 ATCGCAACACG-AAATGACT
103826 ATCGCAAC
1 ATCGCAAC
103834 GAGAGAATCG
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
18 10 0.40
20 15 0.60
ACGTcount: A:0.39, C:0.28, G:0.17, T:0.15
Consensus pattern (19 bp):
ATCGCAACACGAAATGACT
Found at i:103902 original size:20 final size:20
Alignment explanation
Indices: 103877--103944 Score: 100
Period size: 20 Copynumber: 3.4 Consensus size: 20
103867 GCGATTCTTT
**
103877 CGTTGCGATAGTCAAATTCG
1 CGTTGCGATAGTCATTTTCG
103897 CGTTGCGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
* *
103917 CATTGAGATAGTCATTTTCG
1 CGTTGCGATAGTCATTTTCG
103937 CGTTGCGA
1 CGTTGCGA
103945 AAGTAAACTA
Statistics
Matches: 42, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
20 42 1.00
ACGTcount: A:0.21, C:0.19, G:0.25, T:0.35
Consensus pattern (20 bp):
CGTTGCGATAGTCATTTTCG
Found at i:104115 original size:18 final size:18
Alignment explanation
Indices: 104092--104141 Score: 100
Period size: 18 Copynumber: 2.8 Consensus size: 18
104082 TTTACTAAGC
104092 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
104110 AATCTAAGTGAAATGGTT
1 AATCTAAGTGAAATGGTT
104128 AATCTAAGTGAAAT
1 AATCTAAGTGAAAT
104142 TAAGAGTAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 32 1.00
ACGTcount: A:0.42, C:0.06, G:0.20, T:0.32
Consensus pattern (18 bp):
AATCTAAGTGAAATGGTT
Found at i:105905 original size:20 final size:20
Alignment explanation
Indices: 105882--106007 Score: 114
Period size: 20 Copynumber: 6.5 Consensus size: 20
105872 TCTGAAACTT
*
105882 AAAATTGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
105902 AAAATCGCAACACGAAAATG
1 AAAATCGCAACACGAAAATG
** ** **
105922 ACTATCGCAACGTGAATTTG
1 AAAATCGCAACACGAAAATG
** *
105942 ACTATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
*
105961 AAAATCGCAACGCG-AAATG
1 AAAATCGCAACACGAAAATG
* *
105980 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACACGAAAATG
105999 AAAATCGCA
1 AAAATCGCA
106008 TTGCGATTCT
Statistics
Matches: 92, Mismatches: 13, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
19 43 0.47
20 49 0.53
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.15
Consensus pattern (20 bp):
AAAATCGCAACACGAAAATG
Found at i:106013 original size:19 final size:19
Alignment explanation
Indices: 105882--106007 Score: 128
Period size: 19 Copynumber: 6.5 Consensus size: 19
105872 TCTGAAACTT
* *
105882 AAAATTGCAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
*
105902 AAAATCGCAACACGAAAATG
1 AAAATCGCAACGCG-AAATG
** * *
105922 ACTATCGCAACGTGAATTTG
1 AAAATCGCAACGCGAA-ATG
**
105942 ACTATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
105961 AAAATCGCAACGCGAAATG
1 AAAATCGCAACGCGAAATG
105980 AAAATCGCAACGCGAAACT-
1 AAAATCGCAACGCGAAA-TG
105999 AAAATCGCA
1 AAAATCGCA
106008 TTGCGATTCT
Statistics
Matches: 94, Mismatches: 10, Indels: 5
0.86 0.09 0.05
Matches are distributed among these distances:
19 47 0.50
20 47 0.50
ACGTcount: A:0.46, C:0.21, G:0.17, T:0.15
Consensus pattern (19 bp):
AAAATCGCAACGCGAAATG
Found at i:106421 original size:22 final size:22
Alignment explanation
Indices: 106393--106435 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
106383 GAAATAGACG
106393 GATTTCGTCGGAGATGGGGACT
1 GATTTCGTCGGAGATGGGGACT
106415 GATTTCGTCGGAGATGGGGAC
1 GATTTCGTCGGAGATGGGGAC
106436 GGATGTCGCC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.19, C:0.14, G:0.42, T:0.26
Consensus pattern (22 bp):
GATTTCGTCGGAGATGGGGACT
Found at i:106639 original size:20 final size:20
Alignment explanation
Indices: 106616--106707 Score: 148
Period size: 20 Copynumber: 4.6 Consensus size: 20
106606 AAAAATCGCA
* *
106616 TTGCGATAGTCAGCATCGCG
1 TTGCGATAGTCAGAATCTCG
*
106636 TTGCGACAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
*
106656 TTGTGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
106676 TTGCGATAGTCAGAATCTCG
1 TTGCGATAGTCAGAATCTCG
106696 TTGCGATAGTCA
1 TTGCGATAGTCA
106708 AAAAATCGCA
Statistics
Matches: 66, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
20 66 1.00
ACGTcount: A:0.24, C:0.21, G:0.26, T:0.29
Consensus pattern (20 bp):
TTGCGATAGTCAGAATCTCG
Found at i:107536 original size:20 final size:21
Alignment explanation
Indices: 107511--107553 Score: 79
Period size: 21 Copynumber: 2.1 Consensus size: 21
107501 ATGATTGATC
107511 CCTTTGACC-AAAGGATCGAT
1 CCTTTGACCAAAAGGATCGAT
107531 CCTTTGACCAAAAGGATCGAT
1 CCTTTGACCAAAAGGATCGAT
107552 CC
1 CC
107554 CTCTATGAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 9 0.41
21 13 0.59
ACGTcount: A:0.30, C:0.28, G:0.19, T:0.23
Consensus pattern (21 bp):
CCTTTGACCAAAAGGATCGAT
Done.