Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01006432.1 Hibiscus syriacus cultivar Beakdansim tig00015529_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: 124220
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.33
Found at i:8806 original size:7 final size:7
Alignment explanation
Indices: 8794--8827 Score: 68
Period size: 7 Copynumber: 4.9 Consensus size: 7
8784 CATGCCCATC
8794 AAAGAAG
1 AAAGAAG
8801 AAAGAAG
1 AAAGAAG
8808 AAAGAAG
1 AAAGAAG
8815 AAAGAAG
1 AAAGAAG
8822 AAAGAA
1 AAAGAA
8828 ATGAATGACA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
7 27 1.00
ACGTcount: A:0.74, C:0.00, G:0.26, T:0.00
Consensus pattern (7 bp):
AAAGAAG
Found at i:20162 original size:29 final size:29
Alignment explanation
Indices: 20120--20188 Score: 93
Period size: 29 Copynumber: 2.4 Consensus size: 29
20110 AAATATTGAC
** * *
20120 TTTTTTACTAAGTTCGAGGGCTTAATTAA
1 TTTTTTAGAAAGTTCAAGGACTTAATTAA
*
20149 TTTTTTAGAAAGTTTAAGGACTTAATTAA
1 TTTTTTAGAAAGTTCAAGGACTTAATTAA
20178 TTTTTTAGAAA
1 TTTTTTAGAAA
20189 AATTAAGAAA
Statistics
Matches: 35, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
29 35 1.00
ACGTcount: A:0.33, C:0.06, G:0.14, T:0.46
Consensus pattern (29 bp):
TTTTTTAGAAAGTTCAAGGACTTAATTAA
Found at i:20194 original size:29 final size:29
Alignment explanation
Indices: 20140--20195 Score: 94
Period size: 29 Copynumber: 1.9 Consensus size: 29
20130 AGTTCGAGGG
**
20140 CTTAATTAATTTTTTAGAAAGTTTAAGGA
1 CTTAATTAATTTTTTAGAAAAATTAAGGA
20169 CTTAATTAATTTTTTAGAAAAATTAAG
1 CTTAATTAATTTTTTAGAAAAATTAAG
20196 AAATCATTTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.41, C:0.04, G:0.11, T:0.45
Consensus pattern (29 bp):
CTTAATTAATTTTTTAGAAAAATTAAGGA
Found at i:20206 original size:29 final size:29
Alignment explanation
Indices: 20143--20206 Score: 74
Period size: 29 Copynumber: 2.2 Consensus size: 29
20133 TCGAGGGCTT
** * * *
20143 AATTAATTTTTTAGAAAGTTTAAGGACTT
1 AATTAATTTTTTAGAAAAATTAAGAAATC
20172 AATTAATTTTTTAGAAAAATTAAGAAATC
1 AATTAATTTTTTAGAAAAATTAAGAAATC
*
20201 ATTTAA
1 AATTAA
20207 ATATAAAATA
Statistics
Matches: 29, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.03, G:0.09, T:0.42
Consensus pattern (29 bp):
AATTAATTTTTTAGAAAAATTAAGAAATC
Found at i:21165 original size:18 final size:18
Alignment explanation
Indices: 21117--21167 Score: 50
Period size: 21 Copynumber: 2.7 Consensus size: 18
21107 GCTAATCTAT
21117 TATT-TTTTAATAAATAA
1 TATTATTTTAATAAATAA
* *
21134 TAAAATATTATTAATTAATAA
1 T--ATTATT-TTAATAAATAA
21155 TATTATTTTAATA
1 TATTATTTTAATA
21168 CACAAAATCC
Statistics
Matches: 26, Mismatches: 4, Indels: 7
0.70 0.11 0.19
Matches are distributed among these distances:
17 1 0.04
18 5 0.19
19 7 0.27
20 2 0.08
21 11 0.42
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (18 bp):
TATTATTTTAATAAATAA
Found at i:23830 original size:210 final size:209
Alignment explanation
Indices: 23476--23893 Score: 673
Period size: 210 Copynumber: 2.0 Consensus size: 209
23466 ATTCTGTATG
*
23476 ATATATGTATATCACATATAAAAGAAATATATATGTATTATATTTTTTTTTATCAAAAATCACAC
1 ATATATGTATATCACATATAAAAGAAATATATATGTATTATATTTTGTTTTATCAAAAATCACAC
* * * *
23541 ATAAATGGATTGTTATATATATGTATTGTATATGATCATAAAAAATTATTTAAAGTCAAATTAGA
66 ATAAATGGATTGTTATATATATGTATTGTATATAATCATAAAAAACTATTTAAAGTCAAATAAAA
*
23606 TAATATCATAATATTATAAATATTTATAATTAAATTTAAACAAAAATTTAAAAATTCGACTCGA-
131 TAATATCATAATATTATAAATATTTAGAATTAAATTTAAACAAAAATTTAAAAATTCGACTCGAC
23670 CTCGACTTGAAAAAT
196 CT-GACTTGAAAAAT
* *
23685 ATATATGTATATCATATATAAAAGAAATATATATGTATTGTA-TTTGTTTTAT-AGAAAATCACA
1 ATATATGTATATCACATATAAAAGAAATATATATGTATTATATTTTGTTTTATCA-AAAATCACA
23748 CATAAATGGATTGTTATATATATGTTGTATTGTATATAATCAT-AAAAACTATTTAAAGTCAAAT
65 CATAAATGGATTGTTATATATA---TGTATTGTATATAATCATAAAAAACTATTTAAAGTCAAAT
* *
23812 AAAATAATATCATAATATTATACATATTTAGAATTAAATTTAAACAAAAATTTGAAAATTCGACT
127 AAAATAATATCATAATATTATAAATATTTAGAATTAAATTTAAACAAAAATTTAAAAATTCGACT
23877 CGACCTGACTTGAAAAA
192 CGACCTGACTTGAAAAA
23894 AATTTTAAGT
Statistics
Matches: 194, Mismatches: 10, Indels: 9
0.91 0.05 0.04
Matches are distributed among these distances:
207 1 0.01
208 40 0.21
209 40 0.21
210 94 0.48
211 19 0.10
ACGTcount: A:0.46, C:0.08, G:0.08, T:0.38
Consensus pattern (209 bp):
ATATATGTATATCACATATAAAAGAAATATATATGTATTATATTTTGTTTTATCAAAAATCACAC
ATAAATGGATTGTTATATATATGTATTGTATATAATCATAAAAAACTATTTAAAGTCAAATAAAA
TAATATCATAATATTATAAATATTTAGAATTAAATTTAAACAAAAATTTAAAAATTCGACTCGAC
CTGACTTGAAAAAT
Found at i:34681 original size:14 final size:14
Alignment explanation
Indices: 34662--34691 Score: 60
Period size: 14 Copynumber: 2.1 Consensus size: 14
34652 AATAATTACT
34662 TAATTAATAATATA
1 TAATTAATAATATA
34676 TAATTAATAATATA
1 TAATTAATAATATA
34690 TA
1 TA
34692 TATATATATT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 16 1.00
ACGTcount: A:0.57, C:0.00, G:0.00, T:0.43
Consensus pattern (14 bp):
TAATTAATAATATA
Found at i:34682 original size:18 final size:18
Alignment explanation
Indices: 34661--34695 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
34651 AAATAATTAC
34661 TTAATTAATA-ATATATAA
1 TTAA-TAATATATATATAA
34679 TTAATAATATATATATA
1 TTAATAATATATATATA
34696 TATATTATTG
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 11 0.69
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (18 bp):
TTAATAATATATATATAA
Found at i:39631 original size:29 final size:29
Alignment explanation
Indices: 39544--39643 Score: 130
Period size: 29 Copynumber: 3.4 Consensus size: 29
39534 TTATTTAAGC
*
39544 ACCTAAAGTA-TTTTTGATCAAAATAAGT
1 ACCTAAAGTATTTTTTGATCAAAATAAAT
* * *
39572 ATCTAAAGTTATCTTTTTGGTCAAAACAAAT
1 ACCTAAAG-TAT-TTTTTGATCAAAATAAAT
39603 ACCTAAAGTATTTTTTGATCAAAATAAAT
1 ACCTAAAGTATTTTTTGATCAAAATAAAT
*
39632 ACTTAAAGTATT
1 ACCTAAAGTATT
39644 CAACTGTTTT
Statistics
Matches: 61, Mismatches: 8, Indels: 5
0.82 0.11 0.07
Matches are distributed among these distances:
28 7 0.11
29 29 0.48
30 3 0.05
31 22 0.36
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.38
Consensus pattern (29 bp):
ACCTAAAGTATTTTTTGATCAAAATAAAT
Found at i:40110 original size:2 final size:2
Alignment explanation
Indices: 40103--40127 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
40093 TCTTTTTCTC
40103 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 A
40128 CTCCATTTTC
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:42193 original size:60 final size:60
Alignment explanation
Indices: 42044--42194 Score: 155
Period size: 60 Copynumber: 2.5 Consensus size: 60
42034 TTACACTATG
** **
42044 CATCCTCAAACCAAGACCCTCATCCTAAATTAGTCTCCAAATATTTTAACATTCTAGTTT
1 CATCCTCAAACCAAGACCCTCATTATAAATTAGTCTCCAAATATTTTAACATTCTAGACT
* * * *
42104 CAT-CTCTAAACCACGACTCTCGTTATAAATTAGTCTCTAAA-ATTTTAAACATTCT-GAACT
1 CATCCTC-AAACCAAGACCCTCATTATAAATTAGTCTCCAAATATTTT-AACATTCTAG-ACT
* * *
42164 CATCCTCAAACTATGACCCTCATTGTAAATT
1 CATCCTCAAACCAAGACCCTCATTATAAATT
42195 GACCCCTAAA
Statistics
Matches: 74, Mismatches: 13, Indels: 8
0.78 0.14 0.08
Matches are distributed among these distances:
59 9 0.12
60 62 0.84
61 3 0.04
ACGTcount: A:0.34, C:0.26, G:0.06, T:0.34
Consensus pattern (60 bp):
CATCCTCAAACCAAGACCCTCATTATAAATTAGTCTCCAAATATTTTAACATTCTAGACT
Found at i:46578 original size:2 final size:2
Alignment explanation
Indices: 46571--46628 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
46561 GTGAAGAATG
46571 AT AT AT AT 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 AT
46613 AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT
46629 GTATGTATGT
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:46841 original size:31 final size:31
Alignment explanation
Indices: 46763--46841 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
46753 AGTTTTAAAA
*
46763 GTAAC-AAATTGGTCATTAACGTTATCGATTT
1 GTAACAAAATT-GTCACTAACGTTATCGATTT
* **
46794 GTAATAAAATAATCACTAACGTTATCGATTT
1 GTAACAAAATTGTCACTAACGTTATCGATTT
46825 GTAACAAAATTGTCACT
1 GTAACAAAATTGTCACT
46842 CCACCGTTAC
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
31 36 0.90
32 4 0.10
ACGTcount: A:0.38, C:0.14, G:0.13, T:0.35
Consensus pattern (31 bp):
GTAACAAAATTGTCACTAACGTTATCGATTT
Found at i:47498 original size:30 final size:31
Alignment explanation
Indices: 47424--47501 Score: 106
Period size: 31 Copynumber: 2.5 Consensus size: 31
47414 ATAACGATGG
47424 AGTGACTATTTTGTTACAAATCGATAACGTT
1 AGTGACTATTTTGTTACAAATCGATAACGTT
* *
47455 AGT-AATCATTTTGTTACAAATCGAT-ATGTT
1 AGTGACT-ATTTTGTTACAAATCGATAACGTT
*
47485 AGTGACTAATTTGTTAC
1 AGTGACTATTTTGTTAC
47502 TTTTCAAATT
Statistics
Matches: 41, Mismatches: 4, Indels: 5
0.82 0.08 0.10
Matches are distributed among these distances:
30 18 0.44
31 23 0.56
ACGTcount: A:0.32, C:0.12, G:0.15, T:0.41
Consensus pattern (31 bp):
AGTGACTATTTTGTTACAAATCGATAACGTT
Found at i:47720 original size:24 final size:24
Alignment explanation
Indices: 47693--47765 Score: 137
Period size: 24 Copynumber: 3.0 Consensus size: 24
47683 TGGCCAACTT
47693 CGAACCGTAATGTCGGATACGAGA
1 CGAACCGTAATGTCGGATACGAGA
47717 CGAACCGTAATGTCGGATACGAGA
1 CGAACCGTAATGTCGGATACGAGA
*
47741 CGAACCGAAATGTCGGATACGAGA
1 CGAACCGTAATGTCGGATACGAGA
47765 C
1 C
47766 TGCATCTTAA
Statistics
Matches: 48, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
24 48 1.00
ACGTcount: A:0.34, C:0.22, G:0.29, T:0.15
Consensus pattern (24 bp):
CGAACCGTAATGTCGGATACGAGA
Found at i:50584 original size:29 final size:29
Alignment explanation
Indices: 50529--50585 Score: 71
Period size: 29 Copynumber: 2.0 Consensus size: 29
50519 GTGGTTAGAG
* *
50529 GTGTACAAAAAATCTGAATATCCGATTTT
1 GTGTAAAAAAAATCCGAATATCCGATTTT
*
50558 GTGTAAAAAAATATCCGAA-ATCGGATTT
1 GTGTAAAAAAA-ATCCGAATATCCGATTT
50586 GGGAAAAATC
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
29 18 0.75
30 6 0.25
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (29 bp):
GTGTAAAAAAAATCCGAATATCCGATTTT
Found at i:61169 original size:2 final size:2
Alignment explanation
Indices: 61162--61209 Score: 96
Period size: 2 Copynumber: 24.0 Consensus size: 2
61152 TAAAGTAATA
61162 AT AT AT AT 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 AT
61204 AT AT AT
1 AT AT AT
61210 TCCACATATA
Statistics
Matches: 46, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 46 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:68070 original size:18 final size:18
Alignment explanation
Indices: 68047--68083 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
68037 GTAGAGAAAA
68047 CCAATATAAAAAACCTTT
1 CCAATATAAAAAACCTTT
68065 CCAATATAAAAAACCTTT
1 CCAATATAAAAAACCTTT
68083 C
1 C
68084 TTCTTCAATC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.49, C:0.24, G:0.00, T:0.27
Consensus pattern (18 bp):
CCAATATAAAAAACCTTT
Found at i:71068 original size:18 final size:18
Alignment explanation
Indices: 71045--71079 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
71035 CTAGGAGATT
71045 TGAACATA-AATGATAAGA
1 TGAACATATAA-GATAAGA
71063 TGAACATATAAGATAAG
1 TGAACATATAAGATAAG
71080 CTAGATGGGA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 14 0.88
19 2 0.12
ACGTcount: A:0.54, C:0.06, G:0.17, T:0.23
Consensus pattern (18 bp):
TGAACATATAAGATAAGA
Found at i:71165 original size:21 final size:22
Alignment explanation
Indices: 71136--71179 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 22
71126 GTTGTATGAT
*
71136 AGAAAATTATGA-AGTTATATG
1 AGAAAATTATAAGAGTTATATG
*
71157 AGAAGATTATAAGAGTTATATG
1 AGAAAATTATAAGAGTTATATG
71179 A
1 A
71180 AATTGAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 10 0.50
22 10 0.50
ACGTcount: A:0.48, C:0.00, G:0.20, T:0.32
Consensus pattern (22 bp):
AGAAAATTATAAGAGTTATATG
Found at i:72229 original size:149 final size:149
Alignment explanation
Indices: 71959--72262 Score: 581
Period size: 149 Copynumber: 2.0 Consensus size: 149
71949 GAGTCGAGGG
71959 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
* * *
72024 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTATGTGGTCTTTATGGACATTATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
72089 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
72108 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
1 TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
72173 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
66 ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
72238 TATGGCACTACGGTGCAAT
131 TATGGCACTACGGTGCAAT
72257 TCTACG
1 TCTACG
72263 GGGCACTTCG
Statistics
Matches: 152, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
149 152 1.00
ACGTcount: A:0.27, C:0.17, G:0.21, T:0.35
Consensus pattern (149 bp):
TCTACGCGGTTCTTCGGGACATATGTATATTCTTTGGAACATGTGTGAAGTCTGGAAAGACACAT
ACTTGATCCCTAGCATATGTATATGATTCTTAAAGAATTCTACGTGGTCCTTATGGACATCATTA
TATGGCACTACGGTGCAAT
Found at i:74662 original size:3 final size:3
Alignment explanation
Indices: 74656--74690 Score: 70
Period size: 3 Copynumber: 11.7 Consensus size: 3
74646 AATTCAAAAA
74656 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT AT
74691 ATGAAATATA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 32 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
ATT
Found at i:80468 original size:124 final size:124
Alignment explanation
Indices: 80135--80508 Score: 732
Period size: 124 Copynumber: 3.0 Consensus size: 124
80125 AACCTTCTTG
80135 AAAGACCAGCACAACAAAGATCAAATTGCACAATATGTTGATTCACTCCCCATATTATGAGTACC
1 AAAGACCAGCACAACAAAGATCAAATTGCACAATATGTTGATTCACTCCCCATATTATGAGTACC
80200 CCACAGTATACAAGCAGGTTTTCCTTATAATTCAAGCTTTTACCAT-AAAATTTCACTA
66 CCACAGTATACAAGCAGGTTTTCCTTATAATTCAAGCTTTTACCATAAAAATTTCACTA
80258 AAAGACCAGCACAACAAAGATCAAATTGCACAATATGTTGATTCACTCCCCATATTATGAGTACC
1 AAAGACCAGCACAACAAAGATCAAATTGCACAATATGTTGATTCACTCCCCATATTATGAGTACC
80323 CCACAGTATACAAGCAGGTTTTCCTTATAATTCAAGCTTTTACCATAAAAATTTCACTA
66 CCACAGTATACAAGCAGGTTTTCCTTATAATTCAAGCTTTTACCATAAAAATTTCACTA
80382 AAAGACCAGCACAACAAAGATCAAATTGCACAATATGTTGATTCACTCCCCATATTATGAGTACC
1 AAAGACCAGCACAACAAAGATCAAATTGCACAATATGTTGATTCACTCCCCATATTATGAGTACC
*
80447 CCACAGTATACAAGCAAGTTTTCCTTATAATTCAAGCTTTTACCATAAAAATTTCACTA
66 CCACAGTATACAAGCAGGTTTTCCTTATAATTCAAGCTTTTACCATAAAAATTTCACTA
80506 AAA
1 AAA
80509 CAACAACAAA
Statistics
Matches: 249, Mismatches: 1, Indels: 1
0.99 0.00 0.00
Matches are distributed among these distances:
123 111 0.45
124 138 0.55
ACGTcount: A:0.39, C:0.23, G:0.10, T:0.28
Consensus pattern (124 bp):
AAAGACCAGCACAACAAAGATCAAATTGCACAATATGTTGATTCACTCCCCATATTATGAGTACC
CCACAGTATACAAGCAGGTTTTCCTTATAATTCAAGCTTTTACCATAAAAATTTCACTA
Found at i:84236 original size:426 final size:420
Alignment explanation
Indices: 83169--84297 Score: 1141
Period size: 425 Copynumber: 2.7 Consensus size: 420
83159 TAAATTGTCA
** * * * * *
83169 ACTTTTGAATGAAATGAGTGTTGTTATGGTAAA-GATGTTTAGATATTCACTGGGAAAGTGCAAG
1 ACTTTTGAATGAAATGTCTGGTGCTATGG-AAAGGATGATTAG---TTCACTAGGAAAGAGCAAG
* * *
83233 AAGATT-ATACAAGGC-AAATCATTCTCAAATG-T--TGTTTTCTGATGC--TTTT-AGTAATCT
62 AAG-TTCATATAAGGCAAAATCATTCTCAAATGTTAGTGTTTTCTGATACTTTTTTCA-TAATTT
* * * * * *** ** * **
83290 GAGGGTCTTGAGTTGATTTCGA-TTATTTACACGTTTCTCACTCACTTTAATTTACATATATTCA
125 GAGGGGCTCGAGTTGATGTC-ATTTGTTTATACAAATCTCACTTGCTTTGATTCGCATATATTCA
* * * * * *
83354 TTGTGACAATGATATTCTGTTGTCGATTATCGATTTTTGAATGAAATGAGTGATT-CTTTGGTAA
189 TTGTGACAATGATA---TATTGTCAATTATCGAATTTTGAATGAAACGAGAGGTTGCTTTGGTAA
* * * * *
83418 GGATGGTTTGGTTTTTCACTAGG-AAAGAAAAAGAAGAGTATATTAGGCAAAATGATTCTCATTT
251 GGAT-GTTTAGATGTTCAC-AGGAAAAGAGAAAGAAGAGTATATGAGGCAAAATGATTCTCATTT
* ** *
83482 ATTATTGTTTTCTCGAGTGTCTTGAGCTATGTCCATTCATGATATGGATCTCACTCACTTTGGTG
314 ATTATTGTTTTCTCCACAG-CTTGAGCTATGTCCATTCATGATATAGATCT-ACTCACTTTGGTG
*
83547 TTCATACATTCTGTATGACACTGATATTCTGTTGTTGAATCATG
377 TTCATACATTCTGCATGACACTGATATTCTGTTGTTGAATCATG
* * * *
83591 ACTTTTGGATGAAATGTCTGGTGTTATGGAAAGGATGATTAGTTCCCTAGGAACGAGCAAGAAGT
1 ACTTTTGAATGAAATGTCTGGTGCTATGGAAAGGATGATTAGTTCACTAGGAAAGAGCAAGAAGT
*
83656 TCATATAAGGCAAAATCATTCTCAGATGTTAGTGTTTTCTGATACTTTTTTCATAATTTGAGGGG
66 TCATATAAGGCAAAATCATTCTCAAATGTTAGTGTTTTCTGATACTTTTTTCATAATTTGAGGGG
* *
83721 CTCGAGTTGATGTCATTTGTTTATACGAATCTCTCTTGCTTTGATTCGCATATATTCATTGTGAC
131 CTCGAGTTGATGTCATTTGTTTATACAAATCTCACTTGCTTTGATTCGCATATATTCATTGTGAC
*
83786 AATGATATTTCTGTTGTCAATTATCGAATTTTGAATGAAACGAG-GGTTGCTTTGGTAAGGATGT
196 AATGATA----TATTGTCAATTATCGAATTTTGAATGAAACGAGAGGTTGCTTTGGTAAGGATGT
* * * * *
83850 TTAGATGTTCACCGGAAAAGAGTAAGAAGGGTGTATGAGGCAAAATGATTCTCATTTATTGTTGT
257 TTAGATGTTCACAGGAAAAGAGAAAGAAGAGTATATGAGGCAAAATGATTCTCATTTATTATTGT
* *
83915 TTTCTCCACAG-TTGAGCTGATGTCCATTCATGAT-TCAGATCT-CTCTCTTTGGTTTTCATACA
322 TTTCTCCACAGCTTGAGCT-ATGTCCATTCATGATAT-AGATCTACTCACTTTGGTGTTCATACA
83977 TTCTGCATGACACTGATATTCTGTTGTTGAATCATTG
385 TTCTGCATGACACTGATATTCTGTTGTTGAATCA-TG
* *
84014 ACTTTTGAATGAAATGTCTTGTGCTATGGAAAGGATGTTTAGTTGTTCACTAGGAAAGAGCAAGA
1 ACTTTTGAATGAAATGTCTGGTGCTATGGAAAGGATGATTA---GTTCACTAGGAAAGAGCAAGA
* * *
84079 AGTTTATATTATAGGCAAAATCATTCTCAAATGTTGGTGTTTTCTGATATCTTTTTTTCATATTT
63 AGTTCATA-TA-AGGCAAAATCATTCTCAAATGTTAGTGTTTTCTGATA-C-TTTTTTCATAATT
* * * * * *
84144 TGAGGGGCTTGAGTTGATGTCGA-TTGTTTATACAAATCTGAGTTGCTTTGA-TCTGCTTGTGTT
124 TGAGGGGCTCGAGTTGATGTC-ATTTGTTTATACAAATCTCACTTGCTTTGATTC-GCATATATT
* * ** * * * * *
84207 CTTTGTGACACTGATA-ATTGTCAAATTATC-AACTTCCGAATGAACCG-GATGTCGATGTGGTA
187 CATTGTGACAATGATATATTGTC-AATTATCGAA-TTTTGAATGAAACGAGAGGTTGCTTTGGTA
84269 CA-GATGTTTAGATGTTCACAGGAAAAGAG
250 -AGGATGTTTAGATGTTCACAGGAAAAGAG
84298 CCAGAAGTTG
Statistics
Matches: 602, Mismatches: 76, Indels: 54
0.82 0.10 0.07
Matches are distributed among these distances:
418 2 0.00
419 26 0.04
420 15 0.02
421 4 0.01
422 84 0.14
423 59 0.10
424 23 0.04
425 145 0.24
426 126 0.21
427 3 0.00
428 35 0.06
429 3 0.00
430 76 0.13
431 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (420 bp):
ACTTTTGAATGAAATGTCTGGTGCTATGGAAAGGATGATTAGTTCACTAGGAAAGAGCAAGAAGT
TCATATAAGGCAAAATCATTCTCAAATGTTAGTGTTTTCTGATACTTTTTTCATAATTTGAGGGG
CTCGAGTTGATGTCATTTGTTTATACAAATCTCACTTGCTTTGATTCGCATATATTCATTGTGAC
AATGATATATTGTCAATTATCGAATTTTGAATGAAACGAGAGGTTGCTTTGGTAAGGATGTTTAG
ATGTTCACAGGAAAAGAGAAAGAAGAGTATATGAGGCAAAATGATTCTCATTTATTATTGTTTTC
TCCACAGCTTGAGCTATGTCCATTCATGATATAGATCTACTCACTTTGGTGTTCATACATTCTGC
ATGACACTGATATTCTGTTGTTGAATCATG
Found at i:84338 original size:426 final size:418
Alignment explanation
Indices: 83169--84345 Score: 1050
Period size: 426 Copynumber: 2.8 Consensus size: 418
83159 TAAATTGTCA
** * * * * *
83169 ACTTTTGAATGAAATGAGTGTTGTTATGGTAAA-GATGTTTAGATATTCACTGGGAAAGTGCAAG
1 ACTTTTGAATGAAATGTCTGGTGCTATGG-AAAGGATGATTAG---TTCACTAGGAAAGAGCAAG
* * *
83233 AAGATT-ATACAAGGC-AAATCATTCTCAAATG-T--TGTTTTCTGATGC--TTTT-AGTAATCT
62 AAG-TTCATATAAGGCAAAATCATTCTCAAATGTTAGTGTTTTCTGATACTTTTTTCA-TAATTT
* * * * * *** ** * **
83290 GAGGGTCTTGAGTTGATTTCGA-TTATTTACACGTTTCTCACTCACTTTAATTTACATATATTCA
125 GAGGGGCTCGAGTTGATGTC-ATTTGTTTATACAAATCTCACTTGCTTTGATTCGCATATATTCA
* * * ** * * *
83354 TTGTGACAATGATATTCTGTTGTCGATTATCGATTTTTGAATGAAATGAGTGATTC--TTTGGTA
189 TTGTGACAATGATA---TATTGTCAATTATCGAATTCCGAATGAAACGAG-G-GTCGATGTGGTA
* * * ** * * * **
83417 AGGATGGTTTGGTTTTTCACTAGG-AAAGAAAAAGAAGAGTATATTAGGCAAAATGATTCTCATT
249 AGGAT-GTTTAGATGTTCAC-AGGAAAAGAGCAAGAAGGGTGTATCAGGCAAAATGATTCTCAAC
* * * ** *
83481 TATTATTGTTTTCTCGAGTGTCTTGAGCTATGTCCATTCATGATATGGATCTCACTCACTTTGGT
312 TATTGTTGCTTTCTCCACAG--TTGAGCTATGTCCATTCATGATATAGATCT-ACTCACTTTGGT
*
83546 GTTCATACATTCTGTATGACACTGATATTCTGTTGTTGAATCATG
374 GTTCATACATTCTGCATGACACTGATATTCTGTTGTTGAATCATG
* * * *
83591 ACTTTTGGATGAAATGTCTGGTGTTATGGAAAGGATGATTAGTTCCCTAGGAACGAGCAAGAAGT
1 ACTTTTGAATGAAATGTCTGGTGCTATGGAAAGGATGATTAGTTCACTAGGAAAGAGCAAGAAGT
*
83656 TCATATAAGGCAAAATCATTCTCAGATGTTAGTGTTTTCTGATACTTTTTTCATAATTTGAGGGG
66 TCATATAAGGCAAAATCATTCTCAAATGTTAGTGTTTTCTGATACTTTTTTCATAATTTGAGGGG
* *
83721 CTCGAGTTGATGTCATTTGTTTATACGAATCTCTCTTGCTTTGATTCGCATATATTCATTGTGAC
131 CTCGAGTTGATGTCATTTGTTTATACAAATCTCACTTGCTTTGATTCGCATATATTCATTGTGAC
* ** * * *
83786 AATGATATTTCTGTTGTCAATTATCGAATTTTGAATGAAACGAGGGTTGCTTTGGTAAGGATGTT
196 AATGATA----TATTGTCAATTATCGAATTCCGAATGAAACGAGGGTCGATGTGGTAAGGATGTT
* * * ** *
83851 TAGATGTTCACCGGAAAAGAGTAAGAAGGGTGTATGAGGCAAAATGATTCTCATTTATTGTTGTT
257 TAGATGTTCACAGGAAAAGAGCAAGAAGGGTGTATCAGGCAAAATGATTCTCAACTATTGTTGCT
* *
83916 TTCTCCACAGTTGAGCTGATGTCCATTCATGAT-TCAGATCT-CTCTCTTTGGTTTTCATACATT
322 TTCTCCACAGTTGAGCT-ATGTCCATTCATGATAT-AGATCTACTCACTTTGGTGTTCATACATT
83979 CTGCATGACACTGATATTCTGTTGTTGAATCATTG
385 CTGCATGACACTGATATTCTGTTGTTGAATCA-TG
* *
84014 ACTTTTGAATGAAATGTCTTGTGCTATGGAAAGGATGTTTAGTTGTTCACTAGGAAAGAGCAAGA
1 ACTTTTGAATGAAATGTCTGGTGCTATGGAAAGGATGATTA---GTTCACTAGGAAAGAGCAAGA
* * *
84079 AGTTTATATTATAGGCAAAATCATTCTCAAATGTTGGTGTTTTCTGATATCTTTTTTTCATATTT
63 AGTTCATA-TA-AGGCAAAATCATTCTCAAATGTTAGTGTTTTCTGATA-C-TTTTTTCATAATT
* * * * * *
84144 TGAGGGGCTTGAGTTGATGTCGA-TTGTTTATACAAATCTGAGTTGCTTTGA-TCTGCTTGTGTT
124 TGAGGGGCTCGAGTTGATGTC-ATTTGTTTATACAAATCTCACTTGCTTTGATTC-GCATATATT
* * * *
84207 CTTTGTGACACTGATA-ATTGTCAAATTATC-AACTTCCGAATGAACCG-GATGTCGATGTGGTA
187 CATTGTGACAATGATATATTGTC-AATTATCGAA-TTCCGAATGAAACGAG-GGTCGATGTGGTA
* * * *
84269 CA-GATGTTTAGATGTTCACAGGAAAAGAGCCAGAA-GTTGATATCTGGCAAAGTCGA-TCTCAA
249 -AGGATGTTTAGATGTTCACAGGAAAAGAGCAAGAAGGGTG-TATCAGGCAAAAT-GATTCTCAA
84331 CTATTGTTGCTTTCT
311 CTATTGTTGCTTTCT
84346 GATATTTTTC
Statistics
Matches: 637, Mismatches: 86, Indels: 60
0.81 0.11 0.08
Matches are distributed among these distances:
418 2 0.00
419 26 0.04
420 15 0.02
421 4 0.01
422 84 0.13
423 59 0.09
424 24 0.04
425 146 0.23
426 157 0.25
427 5 0.01
428 35 0.05
429 3 0.00
430 76 0.12
431 1 0.00
ACGTcount: A:0.27, C:0.13, G:0.21, T:0.39
Consensus pattern (418 bp):
ACTTTTGAATGAAATGTCTGGTGCTATGGAAAGGATGATTAGTTCACTAGGAAAGAGCAAGAAGT
TCATATAAGGCAAAATCATTCTCAAATGTTAGTGTTTTCTGATACTTTTTTCATAATTTGAGGGG
CTCGAGTTGATGTCATTTGTTTATACAAATCTCACTTGCTTTGATTCGCATATATTCATTGTGAC
AATGATATATTGTCAATTATCGAATTCCGAATGAAACGAGGGTCGATGTGGTAAGGATGTTTAGA
TGTTCACAGGAAAAGAGCAAGAAGGGTGTATCAGGCAAAATGATTCTCAACTATTGTTGCTTTCT
CCACAGTTGAGCTATGTCCATTCATGATATAGATCTACTCACTTTGGTGTTCATACATTCTGCAT
GACACTGATATTCTGTTGTTGAATCATG
Found at i:85035 original size:53 final size:53
Alignment explanation
Indices: 84972--85072 Score: 184
Period size: 53 Copynumber: 1.9 Consensus size: 53
84962 TAGTGAGTCG
*
84972 GTTTTCGAGTTCAACTCGAGGCCAGATTTTATCAATTCGAAAAACTGAGTTTT
1 GTTTTCGAGTTCAACTCGAGGCCAGATTTTACCAATTCGAAAAACTGAGTTTT
*
85025 GTTTTCGAGTTCAACTCGAGGTCAGATTTTACCAATTCGAAAAACTGA
1 GTTTTCGAGTTCAACTCGAGGCCAGATTTTACCAATTCGAAAAACTGA
85073 ATTTCAAAAT
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
53 46 1.00
ACGTcount: A:0.30, C:0.18, G:0.19, T:0.34
Consensus pattern (53 bp):
GTTTTCGAGTTCAACTCGAGGCCAGATTTTACCAATTCGAAAAACTGAGTTTT
Found at i:94192 original size:25 final size:25
Alignment explanation
Indices: 94120--94180 Score: 79
Period size: 25 Copynumber: 2.4 Consensus size: 25
94110 TAGAAAGTGT
* * *
94120 CTTTTAAAAGT-TCCGTAGAAAATAA
1 CTTTTAAAAGTAT-TGTACAAAAGAA
94145 CTTTTAAAAGTATTGTACAAAAGAA
1 CTTTTAAAAGTATTGTACAAAAGAA
94170 CTTTTAAAAGT
1 CTTTTAAAAGT
94181 GATATTTAAA
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
25 31 0.97
26 1 0.03
ACGTcount: A:0.44, C:0.10, G:0.11, T:0.34
Consensus pattern (25 bp):
CTTTTAAAAGTATTGTACAAAAGAA
Found at i:98266 original size:3 final size:3
Alignment explanation
Indices: 98258--98286 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
98248 AATGGGCACC
98258 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT CA
98287 GGTTTTGAGA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.34, G:0.00, T:0.31
Consensus pattern (3 bp):
CAT
Found at i:102108 original size:30 final size:28
Alignment explanation
Indices: 102055--102125 Score: 81
Period size: 30 Copynumber: 2.4 Consensus size: 28
102045 AAACACTCAA
102055 AATATTATTATTTTATATATTTAATATT
1 AATATTATTATTTTATATATTTAATATT
**
102083 AATA-TATTATTTTAGTATCATTTTAATAAA
1 AATATTATTATTTTA-TAT-A-TTTAATATT
102113 AATATTAATTATT
1 AATATT-ATTATT
102126 AAATTATATT
Statistics
Matches: 36, Mismatches: 2, Indels: 6
0.82 0.05 0.14
Matches are distributed among these distances:
27 10 0.28
28 7 0.19
29 1 0.03
30 11 0.31
31 1 0.03
32 6 0.17
ACGTcount: A:0.42, C:0.01, G:0.01, T:0.55
Consensus pattern (28 bp):
AATATTATTATTTTATATATTTAATATT
Found at i:102203 original size:16 final size:18
Alignment explanation
Indices: 102182--102214 Score: 52
Period size: 16 Copynumber: 1.9 Consensus size: 18
102172 TTTTAGTAAT
102182 ATACAA-TAA-ATTATTA
1 ATACAACTAATATTATTA
102198 ATACAACTAATATTATT
1 ATACAACTAATATTATT
102215 TTTAATTTCA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 6 0.40
17 3 0.20
18 6 0.40
ACGTcount: A:0.52, C:0.09, G:0.00, T:0.39
Consensus pattern (18 bp):
ATACAACTAATATTATTA
Found at i:102322 original size:17 final size:17
Alignment explanation
Indices: 102300--102358 Score: 66
Period size: 17 Copynumber: 3.4 Consensus size: 17
102290 TTTATTTTAA
102300 TATTTTAATAATATTAT
1 TATTTTAATAATATTAT
*
102317 TATTTTAATAAGTAATTAA
1 TATTTTAATAA-T-ATTAT
*
102336 TATACTTAATAATA-TAT
1 TAT-TTTAATAATATTAT
102353 TATTTT
1 TATTTT
102359 TATTTTAATA
Statistics
Matches: 35, Mismatches: 4, Indels: 7
0.76 0.09 0.15
Matches are distributed among these distances:
16 2 0.06
17 16 0.46
18 2 0.06
19 8 0.23
20 7 0.20
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.54
Consensus pattern (17 bp):
TATTTTAATAATATTAT
Found at i:102336 original size:25 final size:26
Alignment explanation
Indices: 102268--102338 Score: 76
Period size: 25 Copynumber: 2.8 Consensus size: 26
102258 AAAATATACT
* *
102268 TTTTAAAATA-TAATATAATATTTTTA
1 TTTTAATATAGTAAT-TAATATTATTA
**
102294 TTTTAATATTTTAA-TAATATTATTA
1 TTTTAATATAGTAATTAATATTATTA
102319 TTTTAATA-AGTAATTAATAT
1 TTTTAATATAGTAATTAATAT
102339 ACTTAATAAT
Statistics
Matches: 38, Mismatches: 5, Indels: 5
0.79 0.10 0.10
Matches are distributed among these distances:
24 3 0.08
25 24 0.63
26 8 0.21
27 3 0.08
ACGTcount: A:0.44, C:0.00, G:0.01, T:0.55
Consensus pattern (26 bp):
TTTTAATATAGTAATTAATATTATTA
Found at i:102337 original size:36 final size:37
Alignment explanation
Indices: 102296--102406 Score: 127
Period size: 42 Copynumber: 2.9 Consensus size: 37
102286 TATTTTTATT
* *
102296 TTAATAT-TTTAATAATATTATTATTTTAATAAGTAA
1 TTAATATATTTAATAATATTTTTATTTTAATAAATAA
*
102332 TTAATATACTTAATAATATATTATTTTTATTTTAATAAATAT
1 TTAATATA-TT--TAATA-A-TATTTTTATTTTAATAAATAA
*
102374 TTAATATAATT-ATAATATTTTTATTTTAATAAA
1 TTAATATATTTAATAATATTTTTATTTTAATAAA
102407 ATATAATAAT
Statistics
Matches: 65, Mismatches: 4, Indels: 12
0.80 0.05 0.15
Matches are distributed among these distances:
36 25 0.38
37 1 0.02
38 5 0.08
39 1 0.02
40 5 0.08
41 2 0.03
42 26 0.40
ACGTcount: A:0.44, C:0.01, G:0.01, T:0.54
Consensus pattern (37 bp):
TTAATATATTTAATAATATTTTTATTTTAATAAATAA
Found at i:102425 original size:27 final size:25
Alignment explanation
Indices: 102373--102427 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 25
102363 TTAATAAATA
* **
102373 TTTAATATAATTATAATATTTTTAT
1 TTTAATAAAATTATAATATTAGTAT
102398 TTTAATAAAATATAATAATATTAGTAT
1 TTTAATAAAAT-T-ATAATATTAGTAT
102425 TTT
1 TTT
102428 TATTTAAAAT
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 10 0.40
26 1 0.04
27 14 0.56
ACGTcount: A:0.44, C:0.00, G:0.02, T:0.55
Consensus pattern (25 bp):
TTTAATAAAATTATAATATTAGTAT
Found at i:102823 original size:58 final size:56
Alignment explanation
Indices: 102751--102882 Score: 149
Period size: 58 Copynumber: 2.3 Consensus size: 56
102741 GTTTCTAAAT
* * * * *
102751 TATGATTCTTATTCTATTAGT-CTGTAAACTTTTGAATATTTCAATTTCATCCTCAAAC
1 TATGATTCTCATTCTATTAATAC--TAAA-TTTTAAAAATTCCAATTTCATCCTCAAAC
102809 TATGATTCTCATTCTAAATTAATACTAAATTTTAAAAATTCCAATTTCATCCTCAAAC
1 TATGATTCTCATTCT--ATTAATACTAAATTTTAAAAATTCCAATTTCATCCTCAAAC
* *
102867 TATGACTCCCATTCTA
1 TATGATTCTCATTCTA
102883 AATTGGTCCT
Statistics
Matches: 64, Mismatches: 7, Indels: 8
0.81 0.09 0.10
Matches are distributed among these distances:
56 1 0.02
58 53 0.83
59 4 0.06
60 5 0.08
61 1 0.02
ACGTcount: A:0.33, C:0.20, G:0.05, T:0.42
Consensus pattern (56 bp):
TATGATTCTCATTCTATTAATACTAAATTTTAAAAATTCCAATTTCATCCTCAAAC
Found at i:103240 original size:20 final size:22
Alignment explanation
Indices: 103195--103242 Score: 57
Period size: 22 Copynumber: 2.3 Consensus size: 22
103185 TCAATGTCTG
103195 ATTTTTTTACTAAAAAATATTA
1 ATTTTTTTACTAAAAAATATTA
*
103217 ATTTTTATT-CTATAAAAT-TT-
1 ATTTTT-TTACTAAAAAATATTA
103237 ATTTTT
1 ATTTTT
103243 CAAAACATAT
Statistics
Matches: 24, Mismatches: 1, Indels: 4
0.83 0.03 0.14
Matches are distributed among these distances:
20 6 0.25
21 2 0.08
22 14 0.58
23 2 0.08
ACGTcount: A:0.38, C:0.04, G:0.00, T:0.58
Consensus pattern (22 bp):
ATTTTTTTACTAAAAAATATTA
Found at i:103328 original size:26 final size:25
Alignment explanation
Indices: 103299--103366 Score: 73
Period size: 26 Copynumber: 2.6 Consensus size: 25
103289 ATTTTCATAG
*
103299 TTTTATTATGATTTTTCAAAATGACA
1 TTTTATTATGATTTTT-AAAAAGACA
* * *
103325 TTTTAACTATAATTTTTAAAAAGACT
1 TTTT-ATTATGATTTTTAAAAAGACA
103351 TTTTAGTTATGATTTT
1 TTTTA-TTATGATTTT
103367 ATAGACTATA
Statistics
Matches: 34, Mismatches: 6, Indels: 4
0.77 0.14 0.09
Matches are distributed among these distances:
25 1 0.03
26 23 0.68
27 10 0.29
ACGTcount: A:0.34, C:0.06, G:0.07, T:0.53
Consensus pattern (25 bp):
TTTTATTATGATTTTTAAAAAGACA
Found at i:116414 original size:92 final size:92
Alignment explanation
Indices: 116199--116497 Score: 356
Period size: 92 Copynumber: 3.2 Consensus size: 92
116189 CTGAGCTTAT
* * * * * * *
116199 TGAGAGGGAAGAGGCTGTTTCATCTGATTCTCCAGATTATAGTCCTCTAC-GCAGCCTCGGAGGA
1 TGAGAGGGAAGATGCAGTTTCATCTGATTCTCCGGATGACAGT-CTCTTCAGCAGCCTCGGAGAA
* *
116263 TTCCGAGAAGTAAGCAGACTGAA-ATT-C
65 TTCCGAGAAGTAAGCAAAC-CAAGATTGC
* * *
116290 TTG-GAGGGGATGATGCTGTTTCATCTGATTCTCCGGATGACAGCTCTGTTCAGCAGCCTCGGAG
1 -TGAGA-GGGAAGATGCAGTTTCATCTGATTCTCCGGATGACAG-TCTCTTCAGCAGCCTCGGAG
116354 AATTCCGAGAAGTAAGCAAACCAAGATTGC
63 AATTCCGAGAAGTAAGCAAACCAAGATTGC
* * *
116384 CGAGAGGGAAGATGCAG-TTCATCTGATTCTCCGGATGACAGTTCTCTTCAGCAACCTCAGAGAA
1 TGAGAGGGAAGATGCAGTTTCATCTGATTCTCCGGATGACAG-TCTCTTCAGCAGCCTCGGAGAA
*
116448 TTCCGAGAAGTAAGCAAACCAAGATTGT
65 TTCCGAGAAGTAAGCAAACCAAGATTGC
*
116476 TGAGAGGGAAGATGGAGTTTCA
1 TGAGAGGGAAGATGCAGTTTCA
116498 GATGATTCGG
Statistics
Matches: 180, Mismatches: 20, Indels: 13
0.85 0.09 0.06
Matches are distributed among these distances:
91 2 0.01
92 125 0.69
93 50 0.28
94 3 0.02
ACGTcount: A:0.28, C:0.20, G:0.27, T:0.24
Consensus pattern (92 bp):
TGAGAGGGAAGATGCAGTTTCATCTGATTCTCCGGATGACAGTCTCTTCAGCAGCCTCGGAGAAT
TCCGAGAAGTAAGCAAACCAAGATTGC
Found at i:119902 original size:21 final size:20
Alignment explanation
Indices: 119878--119927 Score: 55
Period size: 20 Copynumber: 2.5 Consensus size: 20
119868 AGATGGATTG
**
119878 TCACGCCAGTACCGTGGACTA
1 TCACGCCAACACCGT-GACTA
*
119899 TCACGTCAACACCGTGACTA
1 TCACGCCAACACCGTGACTA
*
119919 GCACGCCAA
1 TCACGCCAA
119928 TACTGTAACG
Statistics
Matches: 24, Mismatches: 5, Indels: 1
0.80 0.17 0.03
Matches are distributed among these distances:
20 12 0.50
21 12 0.50
ACGTcount: A:0.28, C:0.36, G:0.20, T:0.16
Consensus pattern (20 bp):
TCACGCCAACACCGTGACTA
Found at i:120734 original size:31 final size:31
Alignment explanation
Indices: 120651--120736 Score: 102
Period size: 33 Copynumber: 2.7 Consensus size: 31
120641 ATAGTTGTTT
* *
120651 TGATCATTAAATTTATCGAGTTGTTATAAAA
1 TGATCATTAAATTTATCAAATTGTTATAAAA
* *
120682 CGATTAGTTAAATTTTATCAAATTGTTATAAAA
1 TGATCA-TTAAA-TTTATCAAATTGTTATAAAA
120715 TGATCATTAAGA-TTATCAAATT
1 TGATCATTAA-ATTTATCAAATT
120737 TATTATTATT
Statistics
Matches: 46, Mismatches: 6, Indels: 6
0.79 0.10 0.10
Matches are distributed among these distances:
31 14 0.30
32 9 0.20
33 23 0.50
ACGTcount: A:0.41, C:0.07, G:0.10, T:0.42
Consensus pattern (31 bp):
TGATCATTAAATTTATCAAATTGTTATAAAA
Found at i:121105 original size:7 final size:7
Alignment explanation
Indices: 121077--121118 Score: 50
Period size: 7 Copynumber: 6.1 Consensus size: 7
121067 TGGTGAAGAA
121077 TTAGGG-
1 TTAGGGT
*
121083 TTAAGGT
1 TTAGGGT
**
121090 TTAAAGT
1 TTAGGGT
121097 TTAGGGT
1 TTAGGGT
121104 TTAGGGT
1 TTAGGGT
121111 TTAGGGT
1 TTAGGGT
121118 T
1 T
121119 ATTGACCTTC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
6 5 0.16
7 26 0.84
ACGTcount: A:0.21, C:0.00, G:0.36, T:0.43
Consensus pattern (7 bp):
TTAGGGT
Done.