Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Scaffold139
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: 1720190
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.33
Warning! 4798 characters in sequence are not A, C, G, or T
File 1 of 11
Found at i:30 original size:16 final size:16
Alignment explanation
Indices: 6--41 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
1 TAAAA
6 AAAACTTTTTTTATTT
1 AAAACTTTTTTTATTT
* *
22 AAAATTTTTTTTTTTT
1 AAAACTTTTTTTATTT
38 AAAA
1 AAAA
42 ACATAATAAT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (16 bp):
AAAACTTTTTTTATTT
Found at i:262 original size:120 final size:122
Alignment explanation
Indices: 4--344 Score: 372
Period size: 121 Copynumber: 2.8 Consensus size: 122
1 TAA
* *
4 AAAAAACTTTTTT-TATTTAAAATTTTTTTTTTTTAAAAACATAATAATAATATTTTAATTTATT
1 AAAAACCTTTTTTATTTTTAAAATTTTTTTTTTTTAAAAACATAATAATAATATTTTAATTTATT
*
68 AATGTAAATTTTTAAATTGAATTAAATATTATTTTTTATTTTATTAAAAATTATAAT
66 AATGTAAATTTTTAAATTGAATTAAATATTATTTTTTAATTTATTAAAAATTATAAT
* *
125 AAAAACC-TTTTCA-TTTTAAAATTTTTTATTTTTATAAAAACATAGTAATTAA-ATTTTAA-TT
1 AAAAACCTTTTTTATTTTTAAAATTTTTT-TTTTT-TAAAAACATAATAA-TAATATTTTAATTT
* *
186 GTTAATGTAATTTTTTAAACTT-AATT-AA-ATTA-TTTTTAATTTATTAAAAA-TATAAT
63 ATTAATGTAAATTTTTAAA-TTGAATTAAATATTATTTTTTAATTTATTAAAAATTATAAT
* *
242 AATAAACCTTTTTTATTTTTATTTAAA-TTTTTTTTATTAAAAA-TTAAT--TAATATTTTAATT
1 AA-AAACCTTTTTTATTTTTA---AAATTTTTTTTTTTTAAAAACATAATAATAATATTTTAATT
*
303 TATTAATATAAATTTTCTTTAAAGTT-AATTAAATATT-TTTTT
62 TATTAATGTAAA--TT-TTTAAA-TTGAATTAAATATTATTTTT
345 ATTAAAATAA
Statistics
Matches: 186, Mismatches: 15, Indels: 36
0.78 0.06 0.15
Matches are distributed among these distances:
116 3 0.02
117 15 0.08
118 32 0.17
119 12 0.06
120 32 0.17
121 50 0.27
122 29 0.16
123 13 0.07
ACGTcount: A:0.41, C:0.03, G:0.02, T:0.54
Consensus pattern (122 bp):
AAAAACCTTTTTTATTTTTAAAATTTTTTTTTTTTAAAAACATAATAATAATATTTTAATTTATT
AATGTAAATTTTTAAATTGAATTAAATATTATTTTTTAATTTATTAAAAATTATAAT
Found at i:1266 original size:11 final size:11
Alignment explanation
Indices: 1250--1298 Score: 55
Period size: 11 Copynumber: 4.5 Consensus size: 11
1240 TTATTACTTT
1250 TTATTTATAAA
1 TTATTTATAAA
* *
1261 TTATTTTTAAT
1 TTATTTATAAA
1272 TTATTTATAAA
1 TTATTTATAAA
* *
1283 TTAATTA-AAT
1 TTATTTATAAA
1293 TTATTT
1 TTATTT
1299 TTTTAATTAA
Statistics
Matches: 31, Mismatches: 7, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
10 7 0.23
11 24 0.77
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (11 bp):
TTATTTATAAA
Found at i:1277 original size:22 final size:21
Alignment explanation
Indices: 1249--1312 Score: 74
Period size: 22 Copynumber: 3.0 Consensus size: 21
1239 ATTATTACTT
* *
1249 TTTATTTATAAATTATTTTTAA
1 TTTATTTATAAATTA-ATTAAA
1271 TTTATTTATAAATTAATTAAA
1 TTTATTTATAAATTAATTAAA
* *
1292 TTTATTTTTTTAATTAATTAA
1 TTTA-TTTATAAATTAATTAA
1313 TATTGTACAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
21 8 0.22
22 29 0.78
ACGTcount: A:0.39, C:0.00, G:0.00, T:0.61
Consensus pattern (21 bp):
TTTATTTATAAATTAATTAAA
Found at i:4715 original size:93 final size:93
Alignment explanation
Indices: 4567--4921 Score: 489
Period size: 88 Copynumber: 3.9 Consensus size: 93
4557 ATCCTTGCAA
*
4567 TCTTTCTTTTTTTT-TATAAAAAAGAATCCAATTCTCAGATATAATTCATGCATTAGTCTAATCC
1 TCTTTCTTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCC
* *
4631 TTGCAGTCTGACATTTATAATCAATCAG
66 TTGCAGTCTAACATTTACAATCAATCAG
* * *
4659 TCTTTCTTTTTTTTCTATAAAAAAGAATCTGATTTTCAGATATAATTCATGTATTAGTCTAATCC
1 TCTTTCTTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCC
*
4724 TTGCAGTCTGACATTT---A-CAATCAG
66 TTGCAGTCTAACATTTACAATCAATCAG
** *
4748 TC-AACTTTTTTTTCTATAAAAAAGAATCCGATTCACAGATATAATTCATGCA-T--TCTAATCC
1 TCTTTCTTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCC
*
4809 TTGCAGTCTAACATTTACAATCAGTCA-
66 TTGCAGTCTAACATTTACAATCAATCAG
* * **
4836 ACTTT-TCTTTTTTCTATAAAAAAGAATTTGATTCTCAGATATAATTCATGCATTAGTCTAATCC
1 TCTTTCTTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCC
*
4900 TTGTAGTCTAACATTTACAATC
66 TTGCAGTCTAACATTTACAATC
4922 GATTCTTAGA
Statistics
Matches: 234, Mismatches: 20, Indels: 19
0.86 0.07 0.07
Matches are distributed among these distances:
85 23 0.10
87 1 0.00
88 89 0.38
89 15 0.06
90 1 0.00
91 29 0.12
92 14 0.06
93 62 0.26
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (93 bp):
TCTTTCTTTTTTTTCTATAAAAAAGAATCCGATTCTCAGATATAATTCATGCATTAGTCTAATCC
TTGCAGTCTAACATTTACAATCAATCAG
Found at i:4893 original size:176 final size:179
Alignment explanation
Indices: 4572--4921 Score: 546
Period size: 176 Copynumber: 2.0 Consensus size: 179
4562 TGCAATCTTT
*
4572 CTTTTTTTTTATAAAAAAGAATCCAATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAG
1 CTTTTTTTTTATAAAAAAGAATCCAATTCACAGATATAATTCATGCATTA-TCTAATCCTTGCAG
* * * * *
4637 TCTGACATTTATAATCAATCAGTCTTTCTTTTTTTTCTATAAAAAAGAATCTGATTTTCAGATAT
65 TCTAACATTTACAATCAATCAGACTTTCTCTTTTTTCTATAAAAAAGAATCTGATTCTCAGATAT
* *
4702 AATTCATGTATTAGTCTAATCCTTGCAGTCTGACATTTACAATCAGTCAA
130 AATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAGTCAA
*
4752 CTTTTTTTTCTATAAAAAAGAATCCGATTCACAGATATAATTCATGCA-T-TCTAATCCTTGCAG
1 CTTTTTTTT-TATAAAAAAGAATCCAATTCACAGATATAATTCATGCATTATCTAATCCTTGCAG
* *
4815 TCTAACATTTACAATCAGTCA-ACTTT-TCTTTTTTCTATAAAAAAGAATTTGATTCTCAGATAT
65 TCTAACATTTACAATCAATCAGACTTTCTCTTTTTTCTATAAAAAAGAATCTGATTCTCAGATAT
*
4878 AATTCATGCATTAGTCTAATCCTTGTAGTCTAACATTTACAATC
130 AATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATC
4922 GATTCTTAGA
Statistics
Matches: 157, Mismatches: 12, Indels: 6
0.90 0.07 0.03
Matches are distributed among these distances:
176 75 0.48
177 4 0.03
178 32 0.20
180 10 0.06
181 36 0.23
ACGTcount: A:0.33, C:0.17, G:0.09, T:0.41
Consensus pattern (179 bp):
CTTTTTTTTTATAAAAAAGAATCCAATTCACAGATATAATTCATGCATTATCTAATCCTTGCAGT
CTAACATTTACAATCAATCAGACTTTCTCTTTTTTCTATAAAAAAGAATCTGATTCTCAGATATA
ATTCATGCATTAGTCTAATCCTTGCAGTCTAACATTTACAATCAGTCAA
Found at i:4953 original size:57 final size:57
Alignment explanation
Indices: 4865--4978 Score: 174
Period size: 57 Copynumber: 2.0 Consensus size: 57
4855 AAAAGAATTT
* **
4865 GATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGTAGTCTAACATTTACAATC
1 GATTCTCAGATATAATTCATACATTAGTCTAATCCTTACAGTCTAACATTTACAATC
* * *
4922 GATTCTTAGATATAATTCATATATTAGTCTAATCCTTACAGTCTGACATTTACAATC
1 GATTCTCAGATATAATTCATACATTAGTCTAATCCTTACAGTCTAACATTTACAATC
4979 AATCAACTTT
Statistics
Matches: 51, Mismatches: 6, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
57 51 1.00
ACGTcount: A:0.32, C:0.18, G:0.10, T:0.39
Consensus pattern (57 bp):
GATTCTCAGATATAATTCATACATTAGTCTAATCCTTACAGTCTAACATTTACAATC
Found at i:5045 original size:149 final size:148
Alignment explanation
Indices: 4801--5070 Score: 452
Period size: 149 Copynumber: 1.8 Consensus size: 148
4791 ATTCATGCAT
* *
4801 TCTAATCCTTGCAGTCTAACATTTACAATCAGTCAACTTTTCTTTTTTCTATAAAAAAGAATTTG
1 TCTAATCCTTACAGTCTAACATTTACAATCAATCAACTTTTCTTTTTTCTATAAAAAAGAATTTG
* *
4866 ATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGTAGTCTAACATTTACAATCGATTCTTAG
66 ATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAATCTAACATTTACAATCGATTCTTAG
4931 ATATAATTCATATATTAG
131 ATATAATTCATATATTAG
*
4949 TCTAATCCTTACAGTCTGACATTTACAATCAATCAACTTTTCTTTTTTTTCTATAAAAAAGAA-T
1 TCTAATCCTTACAGTCTAACATTTACAATCAATCAACTTTTC--TTTTTTCTATAAAAAAGAATT
* *
5013 TGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAATTTGACATTTACAATC
64 TGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAATCTAACATTTACAATC
5071 AATTAACTTT
Statistics
Matches: 113, Mismatches: 7, Indels: 3
0.92 0.06 0.02
Matches are distributed among these distances:
148 39 0.35
149 55 0.49
150 19 0.17
ACGTcount: A:0.33, C:0.18, G:0.08, T:0.41
Consensus pattern (148 bp):
TCTAATCCTTACAGTCTAACATTTACAATCAATCAACTTTTCTTTTTTCTATAAAAAAGAATTTG
ATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAATCTAACATTTACAATCGATTCTTAG
ATATAATTCATATATTAG
Found at i:5079 original size:92 final size:92
Alignment explanation
Indices: 4921--5125 Score: 279
Period size: 92 Copynumber: 2.2 Consensus size: 92
4911 CATTTACAAT
* * *
4921 CGATTCTTAGATATAATTCATATATTAGTCTAATCCTTACAGTCTGACATTTACAATCAATCAAC
1 CGATTCTAAGATATAATTCATACATTAGTCTAATCCTTACAATCTGACATTTACAATCAATCAAC
* *
4986 TTTTCTTTTTTTTCTATAAAAAAGAAT-
66 TTTTC-TTTTTTCCCATAAAAAAGAATC
* * * * * *
5013 TGATTCTCAGATATAATTCATGCATTAGTCTAATCCTTGCAATTTGACATTTACAATCAATTAAC
1 CGATTCTAAGATATAATTCATACATTAGTCTAATCCTTACAATCTGACATTTACAATCAATCAAC
5078 TTTTCTTTTTTCCCATAAAAAAGAATC
66 TTTTCTTTTTTCCCATAAAAAAGAATC
*
5105 CGATTTTAAGATATAA-TCATA
1 CGATTCTAAGATATAATTCATA
5126 TTTATTTTAA
Statistics
Matches: 98, Mismatches: 14, Indels: 3
0.85 0.12 0.03
Matches are distributed among these distances:
91 23 0.23
92 75 0.77
ACGTcount: A:0.35, C:0.17, G:0.07, T:0.41
Consensus pattern (92 bp):
CGATTCTAAGATATAATTCATACATTAGTCTAATCCTTACAATCTGACATTTACAATCAATCAAC
TTTTCTTTTTTCCCATAAAAAAGAATC
Found at i:6032 original size:119 final size:120
Alignment explanation
Indices: 5731--6079 Score: 380
Period size: 119 Copynumber: 2.9 Consensus size: 120
5721 AATAATAATG
* * *
5731 TATTAATTATTATTTTTAAT---AAAA-AATATTTAATTAACTTTAAAAAAATTATATTAACAAA
1 TATT-ATTATAATTTTTAATAAAAAAATAATATTTAATTAAATTT-AAAAAATTACATTAACAAA
* *
5792 TTAAAA--T-ATTAATTA--TTTTTTAATAATAAAAAATTTTAAATAAAAATAAAAAGGGTT
64 TTAAAATTTAATT-ATTATGTTTTTTAAAAATAAAAAA-TTT---TAAAAACAAAAAGGGTT
* *
5849 TATTATTATTATTTTTTAATAAAATTAAAAATAATATTTAATTAAGTTTAAAAAATTACATTAAC
1 TATTATTA-TAATTTTTAAT--AA--AAAAATAATATTTAATTAAATTTAAAAAATTACATTAAC
*
5914 AAATTAAAATTTAATTATTATGTTTTTATAAAAATAAAAAATTTT-GAAACAAAAA-GGTT
61 AAATTAAAATTTAATTATTATGTTTTT-TAAAAATAAAAAATTTTAAAAACAAAAAGGGTT
* * *
5973 TTTTATTATAATTTTTAATAAAAAAATAATATTTAATTAAATTTAACAATTTACATTAACAAATT
1 TATTATTATAATTTTTAATAAAAAAATAATATTTAATTAAATTTAAAAAATTACATTAACAAATT
*
6038 AAAATATTAATTATTATG-TTTTTAAAAATAAAAAGTTTTAAA
66 AAAAT-TTAATTATTATGTTTTTTAAAAATAAAAAATTTTAAA
6080 TTAATATTTT
Statistics
Matches: 200, Mismatches: 14, Indels: 33
0.81 0.06 0.13
Matches are distributed among these distances:
117 4 0.02
118 29 0.14
119 51 0.25
120 12 0.06
121 2 0.01
123 10 0.05
124 11 0.05
125 36 0.18
126 17 0.09
127 5 0.03
128 3 0.01
129 8 0.04
130 12 0.06
ACGTcount: A:0.52, C:0.02, G:0.03, T:0.43
Consensus pattern (120 bp):
TATTATTATAATTTTTAATAAAAAAATAATATTTAATTAAATTTAAAAAATTACATTAACAAATT
AAAATTTAATTATTATGTTTTTTAAAAATAAAAAATTTTAAAAACAAAAAGGGTT
Found at i:9462 original size:18 final size:19
Alignment explanation
Indices: 9439--9490 Score: 70
Period size: 18 Copynumber: 2.7 Consensus size: 19
9429 TTTTAACTAG
**
9439 ATGTATCGATACATT-TTA
1 ATGTATCGATACATTAAAA
9457 ATGTATCGATACATTGAAAA
1 ATGTATCGATACATT-AAAA
9477 ATGTATCGATACAT
1 ATGTATCGATACAT
9491 CTGGGAAAAA
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
18 15 0.50
20 15 0.50
ACGTcount: A:0.38, C:0.12, G:0.13, T:0.37
Consensus pattern (19 bp):
ATGTATCGATACATTAAAA
Found at i:9567 original size:20 final size:20
Alignment explanation
Indices: 9542--9666 Score: 106
Period size: 20 Copynumber: 5.7 Consensus size: 20
9532 GTAAAAAGAC
*
9542 AAAATGTATCGATAGATTGA
1 AAAATGTATCGATACATTGA
9562 AAAATGTATCGATACATTGA
1 AAAATGTATCGATACATTGA
*
9582 AAAATGTATCGATATATCTAGGTGAAAA
1 AAAATGTATCG--ATA-C-A-TTG---A
*
9610 GATAGAATGTATCGATACATTCA
1 -A-A-AATGTATCGATACATTGA
* *
9633 TACATGTATCGATACATTGA
1 AAAATGTATCGATACATTGA
9653 AAAATGTATCGATA
1 AAAATGTATCGATA
9667 TGTCTGAGTA
Statistics
Matches: 85, Mismatches: 9, Indels: 22
0.73 0.08 0.19
Matches are distributed among these distances:
20 58 0.68
21 1 0.01
22 3 0.04
23 2 0.02
24 1 0.01
25 2 0.02
26 1 0.01
27 1 0.01
28 2 0.02
29 4 0.05
30 1 0.01
31 9 0.11
ACGTcount: A:0.43, C:0.10, G:0.17, T:0.30
Consensus pattern (20 bp):
AAAATGTATCGATACATTGA
Found at i:9611 original size:71 final size:71
Alignment explanation
Indices: 9508--9680 Score: 213
Period size: 71 Copynumber: 2.4 Consensus size: 71
9498 AAAAAGAGCA
* * * * * * *
9508 TGAATAATGTATCAATACATTTGGGTAAAAAGACAAAATGTATCGATAGATTGAAAAATGTATCG
1 TGAAAAATGTATCGATATATCTAGGTAAAAAGACAAAATGTATCGATACATTCAAAAATGTATCG
9573 ATACAT
66 ATACAT
* * * * *
9579 TGAAAAATGTATCGATATATCTAGGTGAAAAGATAGAATGTATCGATACATTCATACATGTATCG
1 TGAAAAATGTATCGATATATCTAGGTAAAAAGACAAAATGTATCGATACATTCAAAAATGTATCG
9644 ATACAT
66 ATACAT
*
9650 TGAAAAATGTATCGATATGTCT-GAGTAAAAA
1 TGAAAAATGTATCGATATATCTAG-GTAAAAA
9681 TGTGACTTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
70 1 0.01
71 86 0.99
ACGTcount: A:0.43, C:0.09, G:0.17, T:0.30
Consensus pattern (71 bp):
TGAAAAATGTATCGATATATCTAGGTAAAAAGACAAAATGTATCGATACATTCAAAAATGTATCG
ATACAT
Found at i:10477 original size:48 final size:47
Alignment explanation
Indices: 10425--10592 Score: 214
Period size: 48 Copynumber: 3.6 Consensus size: 47
10415 CAATGTGCCA
* *
10425 ATTCAAGGCCAACAACATCGAGCTAAGGGAAAAGTGGACAATGTGTTG
1 ATTCAAGGCCAACGACATTGAGCTAA-GGAAAAGTGGACAATGTGTTG
* *
10473 ATTCAAGGCCAGCGACATTAAGCTAAGAGAAAAGTGGACAATGTGTTG
1 ATTCAAGGCCAACGACATTGAGCTAAG-GAAAAGTGGACAATGTGTTG
* * * *
10521 ATTCAAGGCCAGCGACATTGAGCTAA-TAAAGGTGGACAATGTGCTG
1 ATTCAAGGCCAACGACATTGAGCTAAGGAAAAGTGGACAATGTGTTG
*
10567 ATTCGAGGCCAACGAC-TTAGAGCTAA
1 ATTCAAGGCCAACGACATT-GAGCTAA
10593 TAAATGTGCC
Statistics
Matches: 108, Mismatches: 10, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
45 2 0.02
46 38 0.35
47 1 0.01
48 67 0.62
ACGTcount: A:0.36, C:0.17, G:0.27, T:0.20
Consensus pattern (47 bp):
ATTCAAGGCCAACGACATTGAGCTAAGGAAAAGTGGACAATGTGTTG
Found at i:10576 original size:46 final size:46
Alignment explanation
Indices: 10415--10626 Score: 212
Period size: 48 Copynumber: 4.5 Consensus size: 46
10405 AGAGGAGTGC
** * * * *
10415 CAATGTGCCAATTCAAGGCCAACAACATCGAGCTAAGGGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAA--TAAAAGTGGA
* * *
10463 CAATGTGTTGATTCAAGGCCAGCGACATTAAGCTAAGAGAAAAGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCT-A-ATAAAAGTGGA
* *
10511 CAATGTGTTGATTCAAGGCCAGCGACATTGAGCTAATAAAGGTGGA
1 CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAAGTGGA
* * * *
10557 CAATGTGCTGATTCGAGGCCAACGAC-TTAGAGCTAATAAATGT-GC
1 CAATGTGCTGATTCAAGGCCAGCGACATT-GAGCTAATAAAAGTGGA
* *
10602 CAATATGCTGATTCAATGCCAGCGA
1 CAATGTGCTGATTCAAGGCCAGCGA
10627 TATCTAACTT
Statistics
Matches: 142, Mismatches: 19, Indels: 9
0.84 0.11 0.05
Matches are distributed among these distances:
45 24 0.17
46 45 0.32
47 1 0.01
48 70 0.49
49 1 0.01
50 1 0.01
ACGTcount: A:0.35, C:0.18, G:0.25, T:0.21
Consensus pattern (46 bp):
CAATGTGCTGATTCAAGGCCAGCGACATTGAGCTAATAAAAGTGGA
Found at i:10777 original size:28 final size:28
Alignment explanation
Indices: 10740--11070 Score: 358
Period size: 28 Copynumber: 11.4 Consensus size: 28
10730 CACCGACTTA
10740 TGTGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
10768 TGTGGGCTTTGGAAGGGTGCCACTGATTT
1 TGTGGGCTTTGAAAGGGTGCCACTGA-CT
10797 GTGTGGGCTTTGAAAGGGTATGCCACTGACT
1 -TGTGGGCTTTGAAAGGG--TGCCACTGACT
* *
10828 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
10856 TATGGTCTTTTG-AAGAGATGCCACTGACT
1 TGTGGGC-TTTGAAAG-GGTGCCACTGACT
** *
10885 TGTGGGCTTTGAAAAGAATTGCCACCGACTT
1 TGTGGGCTTTG-AAAG-GGTGCCACTGAC-T
* *
10916 ATGTGGGCTTTGAAAGGGTACCACCGACT
1 -TGTGGGCTTTGAAAGGGTGCCACTGACT
* * *
10945 TTTGGGCTTTGAAAGGGTTCCACTGATT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
*
10973 TGTATGGGCTTTAAAAGGGTATGCCACTGACT
1 TG--TGGGCTTTGAAAGGG--TGCCACTGACT
*
11005 TATGGGCTTTGAAAGGGTGCCACTGACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
* *
11033 TGTGGGCTTTGAAAGGATGCCACTAACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACT
11061 TGTGGGCTTT
1 TGTGGGCTTT
11071 AAAAACATGA
Statistics
Matches: 259, Mismatches: 30, Indels: 28
0.82 0.09 0.09
Matches are distributed among these distances:
28 118 0.46
29 23 0.09
30 82 0.32
31 6 0.02
32 30 0.12
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (28 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACT
Found at i:10838 original size:88 final size:88
Alignment explanation
Indices: 10740--11056 Score: 399
Period size: 88 Copynumber: 3.6 Consensus size: 88
10730 CACCGACTTA
* *
10740 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGGTGCCACTGATTTGTGTGGGC
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGATTTGTGTGGGC
10805 TTTGAAAGGGTATGCCACTGACT
66 TTTGAAAGGGTATGCCACTGACT
* * * * *
10828 TGTGGGCTTTGAAAGGATGCCACTAACTTATGGTCTTTTG-AAGAGATGCCACTGA-CT-TGTGG
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGC-TTTGAAAG-GATGCCACTGATTTGTGTGG
* * *
10890 GCTTTGAAA-AGAATTGCCACCGACTT
64 GCTTTGAAAGGGTA-TGCCACTGAC-T
* * * * * *
10916 ATGTGGGCTTTGAAAGGGTACCACCGACTTTTGGGCTTTGAAAGGGTTCCACTGATTTGTATGGG
1 -TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGATTTGTGTGGG
*
10981 CTTTAAAAGGGTATGCCACTGACT
65 CTTTGAAAGGGTATGCCACTGACT
*
11005 TATGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT
1 TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACT
11057 AACTTGTGGG
Statistics
Matches: 191, Mismatches: 29, Indels: 18
0.80 0.12 0.08
Matches are distributed among these distances:
86 2 0.01
87 23 0.12
88 95 0.50
89 48 0.25
90 21 0.11
91 2 0.01
ACGTcount: A:0.21, C:0.17, G:0.31, T:0.31
Consensus pattern (88 bp):
TGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTGATTTGTGTGGGC
TTTGAAAGGGTATGCCACTGACT
Found at i:11028 original size:177 final size:176
Alignment explanation
Indices: 10728--11075 Score: 545
Period size: 177 Copynumber: 2.0 Consensus size: 176
10718 GGGCTTTGAA
* * *
10728 GCCACCGACTTATGTGGGCTTTGAAAGGGTGCCACTGACTTGTGGGCTTTGGAAGGGTGCCACTG
1 GCCACCGACTTATGTGGGCTTTGAAAGGGTACCACCGACTTGTGGGCTTTGAAAGGGTGCCACTG
* * *
10793 ATTTGTGTGGGCTTTGAAAGGGTATGCCACTGACTTGTGGGCTTTGAAAGGATGCCACTAACTTA
66 ATTTGTATGGGCTTTAAAAGGGTATGCCACTGACTTATGGGCTTTGAAAGGATGCCACTAACTTA
* * *
10858 TGGTCTTTTG-AAGAGATGCCACTGACTTGTGGGCTTTGAAAAGAATT
131 TGGGC-TTTGAAAG-GATGCCACTAACTTGTGGGCTTTAAAAAGAATT
* *
10905 GCCACCGACTTATGTGGGCTTTGAAAGGGTACCACCGACTTTTGGGCTTTGAAAGGGTTCCACTG
1 GCCACCGACTTATGTGGGCTTTGAAAGGGTACCACCGACTTGTGGGCTTTGAAAGGGTGCCACTG
* * *
10970 ATTTGTATGGGCTTTAAAAGGGTATGCCACTGACTTATGGGCTTTGAAAGGGTGCCACTGACTTG
66 ATTTGTATGGGCTTTAAAAGGGTATGCCACTGACTTATGGGCTTTGAAAGGATGCCACTAACTTA
11035 TGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAA
131 TGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAA
11076 CATGAACATT
Statistics
Matches: 156, Mismatches: 14, Indels: 3
0.90 0.08 0.02
Matches are distributed among these distances:
176 30 0.19
177 126 0.81
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (176 bp):
GCCACCGACTTATGTGGGCTTTGAAAGGGTACCACCGACTTGTGGGCTTTGAAAGGGTGCCACTG
ATTTGTATGGGCTTTAAAAGGGTATGCCACTGACTTATGGGCTTTGAAAGGATGCCACTAACTTA
TGGGCTTTGAAAGGATGCCACTAACTTGTGGGCTTTAAAAAGAATT
Found at i:12344 original size:15 final size:13
Alignment explanation
Indices: 12324--12396 Score: 53
Period size: 13 Copynumber: 5.5 Consensus size: 13
12314 TCTGGACCCC
12324 TTTTTTGTTTAATT
1 TTTTTTGTTT-ATT
*
12338 GTTTTTTGTTTGTT
1 -TTTTTTGTTTATT
12352 TTTTTTGTTT-TT
1 TTTTTTGTTTATT
12364 GGTTTTTT-TTGT-TT
1 --TTTTTTGTT-TATT
* *
12378 TTTTTTCTTGATT
1 TTTTTTGTTTATT
12391 TTTTTT
1 TTTTTT
12397 TGGTTCTTTT
Statistics
Matches: 51, Mismatches: 2, Indels: 12
0.78 0.03 0.18
Matches are distributed among these distances:
12 8 0.16
13 22 0.43
14 11 0.22
15 10 0.20
ACGTcount: A:0.04, C:0.01, G:0.12, T:0.82
Consensus pattern (13 bp):
TTTTTTGTTTATT
Found at i:12358 original size:9 final size:9
Alignment explanation
Indices: 12340--12382 Score: 54
Period size: 9 Copynumber: 4.9 Consensus size: 9
12330 GTTTAATTGT
12340 TTTTTGTTTG
1 TTTTT-TTTG
12350 TTTTTTTTG
1 TTTTTTTTG
*
12359 --TTTTTGG
1 TTTTTTTTG
12366 TTTTTTTTG
1 TTTTTTTTG
12375 TTTTTTTT
1 TTTTTTTT
12383 TCTTGATTTT
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
7 6 0.21
9 18 0.62
10 5 0.17
ACGTcount: A:0.00, C:0.00, G:0.14, T:0.86
Consensus pattern (9 bp):
TTTTTTTTG
Found at i:12361 original size:20 final size:20
Alignment explanation
Indices: 12336--12396 Score: 65
Period size: 20 Copynumber: 3.1 Consensus size: 20
12326 TTTTGTTTAA
12336 TTGTTTTTTGTTTGTTTTTT
1 TTGTTTTTTGTTTGTTTTTT
*
12356 TTGTTTTTGGTTT-TTTTTGT
1 TTGTTTTTTGTTTGTTTTT-T
*
12376 TT-TTTTTT-CTTGATTTTTT
1 TTGTTTTTTGTTTG-TTTTTT
12395 TT
1 TT
12397 TGGTTCTTTT
Statistics
Matches: 35, Mismatches: 3, Indels: 7
0.78 0.07 0.16
Matches are distributed among these distances:
18 2 0.06
19 13 0.37
20 20 0.57
ACGTcount: A:0.02, C:0.02, G:0.13, T:0.84
Consensus pattern (20 bp):
TTGTTTTTTGTTTGTTTTTT
Found at i:12370 original size:16 final size:16
Alignment explanation
Indices: 12349--12379 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
12339 TTTTTTGTTT
12349 GTTTTTTTTGTTTTTG
1 GTTTTTTTTGTTTTTG
12365 GTTTTTTTTGTTTTT
1 GTTTTTTTTGTTTTT
12380 TTTTCTTGAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.00, C:0.00, G:0.16, T:0.84
Consensus pattern (16 bp):
GTTTTTTTTGTTTTTG
Found at i:12406 original size:11 final size:11
Alignment explanation
Indices: 12339--12411 Score: 55
Period size: 11 Copynumber: 6.8 Consensus size: 11
12329 TGTTTAATTG
12339 TTTTTT-GTTT
1 TTTTTTGGTTT
*
12349 GTTTTT--TTT
1 TTTTTTGGTTT
*
12358 GTTTTTGG-TT
1 TTTTTTGGTTT
*
12368 TTTTTTGTTTTT
1 TTTTTTG-GTTT
*
12380 TTTTCTTGATTT
1 TTTT-TTGGTTT
*
12392 TTTTTTGGTTC
1 TTTTTTGGTTT
12403 TTTTTTGGT
1 TTTTTTGGT
12412 ACGAAAGACG
Statistics
Matches: 52, Mismatches: 6, Indels: 9
0.78 0.09 0.13
Matches are distributed among these distances:
9 9 0.17
10 13 0.25
11 14 0.27
12 13 0.25
13 3 0.06
ACGTcount: A:0.01, C:0.03, G:0.15, T:0.81
Consensus pattern (11 bp):
TTTTTTGGTTT
Found at i:16532 original size:33 final size:33
Alignment explanation
Indices: 16492--16560 Score: 104
Period size: 33 Copynumber: 2.1 Consensus size: 33
16482 CCGTTACAAG
*
16492 CAATGTATCAATACAAT-TCATCACGTATCGATA
1 CAATGTATCAATACAATGT-ACCACGTATCGATA
*
16525 CAATGTATCAATACAATGTACCATGTATCGATA
1 CAATGTATCAATACAATGTACCACGTATCGATA
16558 CAA
1 CAA
16561 ACAGTGGTAC
Statistics
Matches: 33, Mismatches: 2, Indels: 2
0.89 0.05 0.05
Matches are distributed among these distances:
33 32 0.97
34 1 0.03
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.29
Consensus pattern (33 bp):
CAATGTATCAATACAATGTACCACGTATCGATA
Found at i:17254 original size:22 final size:22
Alignment explanation
Indices: 17229--17270 Score: 75
Period size: 22 Copynumber: 1.9 Consensus size: 22
17219 AGATAAACAT
17229 ATTTCTCCCCCTTTATCAAAGC
1 ATTTCTCCCCCTTTATCAAAGC
*
17251 ATTTCTCCCCCTTTGTCAAA
1 ATTTCTCCCCCTTTATCAAA
17271 TATCAAAAAA
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.21, C:0.36, G:0.05, T:0.38
Consensus pattern (22 bp):
ATTTCTCCCCCTTTATCAAAGC
Found at i:19162 original size:13 final size:13
Alignment explanation
Indices: 19144--19170 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
19134 ATAGTAACCC
19144 ATGTATCGATACA
1 ATGTATCGATACA
19157 ATGTATCGATACA
1 ATGTATCGATACA
19170 A
1 A
19171 GGAATGTTGT
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:0.15, G:0.15, T:0.30
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:23096 original size:21 final size:20
Alignment explanation
Indices: 23063--23105 Score: 59
Period size: 21 Copynumber: 2.1 Consensus size: 20
23053 GAATCATGCA
* *
23063 AATTCTTGTTTTCCTTAGCT
1 AATTCTTATTTTCATTAGCT
23083 AATTCATTATTTTCATTAGCT
1 AATTC-TTATTTTCATTAGCT
23104 AA
1 AA
23106 CTTTTTAATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 5 0.25
21 15 0.75
ACGTcount: A:0.26, C:0.16, G:0.07, T:0.51
Consensus pattern (20 bp):
AATTCTTATTTTCATTAGCT
Found at i:25439 original size:19 final size:19
Alignment explanation
Indices: 25395--25450 Score: 76
Period size: 19 Copynumber: 2.9 Consensus size: 19
25385 CTGCCAGTTT
**
25395 CATGTATCGATACAATTGTC
1 CATGTATCGATACAA-TGAA
25415 CATGTATCGATACAATGAA
1 CATGTATCGATACAATGAA
*
25434 CATGTATTGATACAATG
1 CATGTATCGATACAATG
25451 TATCGATACA
Statistics
Matches: 33, Mismatches: 3, Indels: 1
0.89 0.08 0.03
Matches are distributed among these distances:
19 18 0.55
20 15 0.45
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (19 bp):
CATGTATCGATACAATGAA
Found at i:33297 original size:33 final size:33
Alignment explanation
Indices: 33260--33326 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
33250 TTCAACGATT
33260 TGTATCGATACATAAAATGTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
*** *
33293 TGTATCGATACATATTTTTTTGTATCGATACAA
1 TGTATCGATACATAAAATGTTGTATCGATACAA
33326 T
1 T
33327 TTAAGCTACT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.34, C:0.12, G:0.13, T:0.40
Consensus pattern (33 bp):
TGTATCGATACATAAAATGTTGTATCGATACAA
Found at i:33298 original size:13 final size:13
Alignment explanation
Indices: 33280--33304 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
33270 CATAAAATGT
33280 TGTATCGATACAA
1 TGTATCGATACAA
33293 TGTATCGATACA
1 TGTATCGATACA
33305 TATTTTTTTG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.36, C:0.16, G:0.16, T:0.32
Consensus pattern (13 bp):
TGTATCGATACAA
Found at i:33503 original size:52 final size:52
Alignment explanation
Indices: 33366--33511 Score: 190
Period size: 52 Copynumber: 2.8 Consensus size: 52
33356 CATTGCTCAA
* **
33366 ATGTATCGATACACTGATCT--TTGTATCGATACACACAGGCAAATTTGCCCAG
1 ATGTATCGATACACT-AT-TAAATGTATCGATACATGCAGGCAAATTTGCCCAG
* *
33418 ATGTATCGATACA-TTTTATAATGTATCGATACATGCAGGTAAATTTGCCCAG
1 ATGTATCGATACACTATTA-AATGTATCGATACATGCAGGCAAATTTGCCCAG
*
33470 ATGTATCGATACACTATTAAATGTATCGATACATGCAAGCAA
1 ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAA
33512 CTTTTCATAT
Statistics
Matches: 82, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
49 1 0.01
50 1 0.01
51 1 0.01
52 75 0.91
53 4 0.05
ACGTcount: A:0.34, C:0.18, G:0.16, T:0.31
Consensus pattern (52 bp):
ATGTATCGATACACTATTAAATGTATCGATACATGCAGGCAAATTTGCCCAG
Found at i:36638 original size:28 final size:28
Alignment explanation
Indices: 36606--36666 Score: 113
Period size: 28 Copynumber: 2.2 Consensus size: 28
36596 TATTGAAATA
*
36606 ACATTTATTACCTGACGAGATGATCCTG
1 ACATTTATTACCTGACGAGACGATCCTG
36634 ACATTTATTACCTGACGAGACGATCCTG
1 ACATTTATTACCTGACGAGACGATCCTG
36662 ACATT
1 ACATT
36667 CATCTCATAA
Statistics
Matches: 32, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
28 32 1.00
ACGTcount: A:0.30, C:0.23, G:0.16, T:0.31
Consensus pattern (28 bp):
ACATTTATTACCTGACGAGACGATCCTG
Found at i:38352 original size:10 final size:11
Alignment explanation
Indices: 38330--38358 Score: 51
Period size: 10 Copynumber: 2.7 Consensus size: 11
38320 GAAGTTTTTA
38330 TGAAAAATGTT
1 TGAAAAATGTT
38341 TGAAAAAT-TT
1 TGAAAAATGTT
38351 TGAAAAAT
1 TGAAAAAT
38359 CATCTATAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
10 10 0.56
11 8 0.44
ACGTcount: A:0.52, C:0.00, G:0.14, T:0.34
Consensus pattern (11 bp):
TGAAAAATGTT
Found at i:40100 original size:20 final size:20
Alignment explanation
Indices: 40071--40147 Score: 93
Period size: 20 Copynumber: 3.9 Consensus size: 20
40061 GTAAAAAGAC
*
40071 AGAATATATCGATACATTGA
1 AGAATGTATCGATACATTGA
* *
40091 AGAATGTATCGATATATTCA
1 AGAATGTATCGATACATTGA
*
40111 TA-CATGTATCGATACATTGA
1 -AGAATGTATCGATACATTGA
*
40131 AAAATGTATCGATACAT
1 AGAATGTATCGATACAT
40148 CTAGGTAAAA
Statistics
Matches: 48, Mismatches: 7, Indels: 4
0.81 0.12 0.07
Matches are distributed among these distances:
19 1 0.02
20 46 0.96
21 1 0.02
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (20 bp):
AGAATGTATCGATACATTGA
Found at i:40169 original size:31 final size:31
Alignment explanation
Indices: 40131--40189 Score: 102
Period size: 31 Copynumber: 1.9 Consensus size: 31
40121 GATACATTGA
40131 AAAATGTATCGATACATCT-AGGTAAAAAGAG
1 AAAATGTATCGATACATCTGA-GTAAAAAGAG
40162 AAAATGTATCGATACATCTGAGTAAAAA
1 AAAATGTATCGATACATCTGAGTAAAAA
40190 TGTGACTTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 2
0.93 0.00 0.07
Matches are distributed among these distances:
31 26 0.96
32 1 0.04
ACGTcount: A:0.49, C:0.10, G:0.17, T:0.24
Consensus pattern (31 bp):
AAAATGTATCGATACATCTGAGTAAAAAGAG
Found at i:40860 original size:24 final size:22
Alignment explanation
Indices: 40800--40889 Score: 76
Period size: 23 Copynumber: 3.9 Consensus size: 22
40790 TGAATAATAA
40800 TAATTTTTTTAATTCT-TTAAATG
1 TAATTTTTTTAATT-TATT-AATG
*
40823 TTATTTTTTTAATTTATTAATG
1 TAATTTTTTTAATTTATTAATG
*
40845 TAAATTTTTTTAAATTTAATTAAATA
1 T-AATTTTTTT-AATTT-ATT-AATG
* *
40871 TCA-TTTTTTATTTTATTAA
1 TAATTTTTTTAATTTATTAA
40890 AAAAATAAGA
Statistics
Matches: 57, Mismatches: 5, Indels: 12
0.77 0.07 0.16
Matches are distributed among these distances:
21 2 0.04
22 9 0.16
23 27 0.47
24 11 0.19
25 4 0.07
26 4 0.07
ACGTcount: A:0.33, C:0.02, G:0.02, T:0.62
Consensus pattern (22 bp):
TAATTTTTTTAATTTATTAATG
Found at i:40951 original size:32 final size:35
Alignment explanation
Indices: 40879--40951 Score: 82
Period size: 32 Copynumber: 2.2 Consensus size: 35
40869 TATCATTTTT
*
40879 TATTTTATTAAAAAAATAAGAATAAATACTTTTTA
1 TATTTTATTAAAAAAATAAGAATAAATACTTTTAA
* * *
40914 T-TTTTA-TAAAAACAT-ATAATTAATA-TTTTAA
1 TATTTTATTAAAAAAATAAGAATAAATACTTTTAA
40945 TATTTTA
1 TATTTTA
40952 ATGTAATTTT
Statistics
Matches: 33, Mismatches: 4, Indels: 5
0.79 0.10 0.12
Matches are distributed among these distances:
31 6 0.18
32 13 0.39
33 8 0.24
34 5 0.15
35 1 0.03
ACGTcount: A:0.48, C:0.03, G:0.01, T:0.48
Consensus pattern (35 bp):
TATTTTATTAAAAAAATAAGAATAAATACTTTTAA
Found at i:40980 original size:109 final size:114
Alignment explanation
Indices: 40829--41109 Score: 371
Period size: 118 Copynumber: 2.5 Consensus size: 114
40819 AATGTTATTT
*
40829 TTTTAATTTATTAATGTAAATTTTTTTAAATTTAATTAAATATCATTTTTTATTTTATT-AAAAA
1 TTTTAATTTATTAATGT-AATTTTTTTAAATTTAATTAAATATTATTTTTTATTTTATTAAAAAA
40893 -AATAAGAATAAATACTTTTT-A-T-TTTTATAA-AAACATA-TAATTAATA
65 TAATAAGAATAAATACTTTTTAATTATTTTATAATAAA-A-AGTAATTAATA
*
40939 TTTTAATATT-TTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAA
1 TTTTAAT-TTATTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTTATTTTATTAAAAAA
* * *
41003 TAATAATAATAAATCCTTTTTAATTTACTTTTTTAATTTAAAAAGTAATTAATA
65 TAATAAGAATAAATACTTTTTAA-TTA-TTTTATAA--TAAAAAGTAATTAATA
* *
41057 TTTTAATTTATTAATTTAATTTTTTTAAAATTAATTAAATATTATTTTTTATT
1 TTTTAATTTATTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTTATT
41110 ATAAAATAAT
Statistics
Matches: 150, Mismatches: 8, Indels: 18
0.85 0.05 0.10
Matches are distributed among these distances:
109 39 0.26
110 19 0.13
111 20 0.13
112 1 0.01
114 1 0.01
116 7 0.05
117 3 0.02
118 57 0.38
119 3 0.02
ACGTcount: A:0.42, C:0.02, G:0.01, T:0.54
Consensus pattern (114 bp):
TTTTAATTTATTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTTATTTTATTAAAAAAT
AATAAGAATAAATACTTTTTAATTATTTTATAATAAAAAGTAATTAATA
Found at i:40986 original size:22 final size:21
Alignment explanation
Indices: 40937--40999 Score: 58
Period size: 22 Copynumber: 2.9 Consensus size: 21
40927 ATATAATTAA
40937 TATTTTAATATTTTAATGT-AATT
1 TATTTTAA-A-TTTAAT-TAAATT
40960 T-TTTTAAATTTAATTAAATAT
1 TATTTTAAATTTAATTAAAT-T
* *
40981 TATTTTTAATTTTATTAAA
1 TATTTTAAATTTAATTAAA
41000 AAATAATAAT
Statistics
Matches: 35, Mismatches: 2, Indels: 7
0.80 0.05 0.16
Matches are distributed among these distances:
19 1 0.03
20 9 0.26
21 3 0.09
22 21 0.60
23 1 0.03
ACGTcount: A:0.38, C:0.00, G:0.02, T:0.60
Consensus pattern (21 bp):
TATTTTAAATTTAATTAAATT
Found at i:41139 original size:110 final size:109
Alignment explanation
Indices: 40829--41141 Score: 311
Period size: 118 Copynumber: 2.8 Consensus size: 109
40819 AATGTTATTT
* *
40829 TTTTAATTTATTAATGTAAATTTTTTTAAATTTAATTAAATATCATTTTTTATTTTATTAAAAAA
1 TTTTAATTTATTAAT-TTAATTTTTTTAAATTTAATTAAATATTATTTTTTA--TTATT-AAAAA
* *
40894 ATAA-GAATA-AATACTT-TTTA-TTTTTATAAAAACATATAATTAATA
62 ATAATTAATATATTA-TTATTTACTTTTTATAAAAACATATAATTAATA
* *
40939 TTTTAATATT-TTAATGTAATTTTTTTAAATTTAATTAAATATTATTTTTAATTTTATTAAAAAA
1 TTTTAAT-TTATTAATTTAATTTTTTTAAATTTAATTAAATATTATTTTT--TATTATTAAAAAA
* *
41003 TAATAATAATAAATCCTTTTTAATTTACTTTTT-TAATTTAAA-A-AGTAATTAATA
63 TAAT--TAAT--AT-ATTATT-ATTTACTTTTTATAA---AAACATA-TAATTAATA
*
41057 TTTTAATTTATTAATTTAATTTTTTTAAAATTAATTAAATATTATTTTTTATTA-TAAAATAATA
1 TTTTAATTTATTAATTTAATTTTTTTAAATTTAATTAAATATTATTTTTTATTATTAAAA-AATA
41121 ATTAATATATTATTATTTACT
65 ATTAATATATTATTATTTACT
41142 AAATTTTTTA
Statistics
Matches: 171, Mismatches: 13, Indels: 38
0.77 0.06 0.17
Matches are distributed among these distances:
108 9 0.05
109 36 0.21
110 19 0.11
111 10 0.06
112 2 0.01
113 1 0.01
114 6 0.04
115 6 0.04
116 17 0.10
117 8 0.05
118 54 0.32
119 3 0.02
ACGTcount: A:0.43, C:0.02, G:0.01, T:0.54
Consensus pattern (109 bp):
TTTTAATTTATTAATTTAATTTTTTTAAATTTAATTAAATATTATTTTTTATTATTAAAAAATAA
TTAATATATTATTATTTACTTTTTATAAAAACATATAATTAATA
Found at i:46479 original size:6 final size:6
Alignment explanation
Indices: 46468--46493 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
46458 CAGTTTTGAC
46468 TACTAT TACTAT TACTAT TACTAT TA
1 TACTAT TACTAT TACTAT TACTAT TA
46494 GCTGAAAAGT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.35, C:0.15, G:0.00, T:0.50
Consensus pattern (6 bp):
TACTAT
Found at i:47296 original size:22 final size:23
Alignment explanation
Indices: 47254--47299 Score: 60
Period size: 22 Copynumber: 2.0 Consensus size: 23
47244 GCCATTTTCT
47254 TAAATATTAAAATATTATTTTTA
1 TAAATATTAAAATATTATTTTTA
*
47277 TAAAT-TTAAATTAATT-TTTTTA
1 TAAATATTAAAAT-ATTATTTTTA
47299 T
1 T
47300 TATTAAATAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 13 0.62
23 8 0.38
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (23 bp):
TAAATATTAAAATATTATTTTTA
Found at i:47481 original size:22 final size:20
Alignment explanation
Indices: 47437--47481 Score: 54
Period size: 22 Copynumber: 2.1 Consensus size: 20
47427 AAATCATAAT
* *
47437 ATTATTTTTTATAAATTTAA
1 ATTATTTTGTATAAAATTAA
47457 ATTATTATTGTATCAAAATTAA
1 ATTATT-TTGTAT-AAAATTAA
47479 ATT
1 ATT
47482 TAATAAGTAT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 6 0.29
21 5 0.24
22 10 0.48
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (20 bp):
ATTATTTTGTATAAAATTAA
Found at i:47950 original size:2 final size:2
Alignment explanation
Indices: 47943--47973 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
47933 TTTGTCAACT
47943 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA T
47974 TTGAAACTCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.48, C:0.00, G:0.00, T:0.52
Consensus pattern (2 bp):
TA
Found at i:50338 original size:21 final size:21
Alignment explanation
Indices: 50282--50338 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 21
50272 TATTTAAAAA
50282 AATAATTTTTATATTAATACTT
1 AATAATTTTTA-ATTAATACTT
50304 -ATATATTTTGTAATTAA-ACTTT
1 AATA-ATTTT-TAATTAATAC-TT
50326 AATAATTTTTAAT
1 AATAATTTTTAAT
50339 GAGTTGAACA
Statistics
Matches: 31, Mismatches: 0, Indels: 9
0.77 0.00 0.22
Matches are distributed among these distances:
21 9 0.29
22 17 0.55
23 5 0.16
ACGTcount: A:0.40, C:0.04, G:0.02, T:0.54
Consensus pattern (21 bp):
AATAATTTTTAATTAATACTT
Found at i:50924 original size:95 final size:96
Alignment explanation
Indices: 50807--50994 Score: 333
Period size: 95 Copynumber: 2.0 Consensus size: 96
50797 TTTCTTTCAT
*
50807 TATATTTATTTTATCATATAATAAAGTGAAAATCTAACTAAAATTTTGAAAG-AATTGTAGGCTT
1 TATATTTATTTTATCATATAATAAAGTGAAAATCTAACTAAAATTTTGAAAGAAATTGTAGCCTT
* *
50871 GTTATTATCAATTAATTATAGTTTAATTACG
66 ATTATTATCAATTAATTATAATTTAATTACG
*
50902 TATATTTATTTTATCATCTAATAAAGTGAAAATCTAACTAAAATTTTGAAAGAAATTGTAGCCTT
1 TATATTTATTTTATCATATAATAAAGTGAAAATCTAACTAAAATTTTGAAAGAAATTGTAGCCTT
50967 ATTATTATCAATTAATTATAATTTAATT
66 ATTATTATCAATTAATTATAATTTAATT
50995 CTATATGATA
Statistics
Matches: 88, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
95 51 0.58
96 37 0.42
ACGTcount: A:0.41, C:0.07, G:0.09, T:0.44
Consensus pattern (96 bp):
TATATTTATTTTATCATATAATAAAGTGAAAATCTAACTAAAATTTTGAAAGAAATTGTAGCCTT
ATTATTATCAATTAATTATAATTTAATTACG
Found at i:51863 original size:12 final size:12
Alignment explanation
Indices: 51843--51888 Score: 74
Period size: 12 Copynumber: 3.8 Consensus size: 12
51833 TTGATTCCCT
*
51843 GATGTGGATGAG
1 GATGGGGATGAG
*
51855 GATGAGGATGAG
1 GATGGGGATGAG
51867 GATGGGGATGAG
1 GATGGGGATGAG
51879 GATGGGGATG
1 GATGGGGATG
51889 GTTACTGCGT
Statistics
Matches: 32, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 32 1.00
ACGTcount: A:0.26, C:0.00, G:0.54, T:0.20
Consensus pattern (12 bp):
GATGGGGATGAG
Found at i:51889 original size:6 final size:6
Alignment explanation
Indices: 51843--51888 Score: 65
Period size: 6 Copynumber: 7.7 Consensus size: 6
51833 TTGATTCCCT
* * *
51843 GATGTG GATGAG GATGAG GATGAG GATGGG GATGAG GATGGG GATG
1 GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GATGAG GATG
51889 GTTACTGCGT
Statistics
Matches: 36, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
6 36 1.00
ACGTcount: A:0.26, C:0.00, G:0.54, T:0.20
Consensus pattern (6 bp):
GATGAG
Found at i:52140 original size:16 final size:16
Alignment explanation
Indices: 52121--52154 Score: 52
Period size: 16 Copynumber: 2.1 Consensus size: 16
52111 TATAAAAATA
52121 TATTTATAT-TTATATT
1 TATTTATATCTTAT-TT
52137 TATTTATATCTTATTT
1 TATTTATATCTTATTT
52153 TA
1 TA
52155 CCCATACCCA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
16 13 0.76
17 4 0.24
ACGTcount: A:0.29, C:0.03, G:0.00, T:0.68
Consensus pattern (16 bp):
TATTTATATCTTATTT
Found at i:52298 original size:6 final size:6
Alignment explanation
Indices: 52287--52314 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
52277 CGCGAAAAAC
52287 GCGTGG GCGTGG GCGTGG GCGTGG GCGT
1 GCGTGG GCGTGG GCGTGG GCGTGG GCGT
52315 AAGCATAATG
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.00, C:0.18, G:0.64, T:0.18
Consensus pattern (6 bp):
GCGTGG
Found at i:52731 original size:41 final size:42
Alignment explanation
Indices: 52686--52764 Score: 99
Period size: 41 Copynumber: 1.9 Consensus size: 42
52676 TCTAAATTTC
* * *
52686 ATTTAATAAAA-TATTGATATTTATTTTTATTT-TTAAATAAA
1 ATTTAA-AAAATTATTGAAATATATATTTATTTATTAAATAAA
*
52727 ATTTAAAAAATTATTTAAATATATATTTATTTATTAAA
1 ATTTAAAAAATTATTGAAATATATATTTATTTATTAAA
52765 AATGAGGAAC
Statistics
Matches: 32, Mismatches: 4, Indels: 3
0.82 0.10 0.08
Matches are distributed among these distances:
40 4 0.12
41 23 0.72
42 5 0.16
ACGTcount: A:0.47, C:0.00, G:0.01, T:0.52
Consensus pattern (42 bp):
ATTTAAAAAATTATTGAAATATATATTTATTTATTAAATAAA
Found at i:53304 original size:20 final size:19
Alignment explanation
Indices: 53275--53316 Score: 57
Period size: 20 Copynumber: 2.2 Consensus size: 19
53265 TTTATAATTT
**
53275 TAAAATTTATATTTACATA
1 TAAAATTTATACATACATA
53294 TAAACATTTATACATACATA
1 TAAA-ATTTATACATACATA
53314 TAA
1 TAA
53317 TAGAAGTATA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
19 4 0.20
20 16 0.80
ACGTcount: A:0.50, C:0.10, G:0.00, T:0.40
Consensus pattern (19 bp):
TAAAATTTATACATACATA
Found at i:53745 original size:10 final size:10
Alignment explanation
Indices: 53730--53781 Score: 50
Period size: 10 Copynumber: 4.9 Consensus size: 10
53720 TTACTTTAAT
53730 ATATAAATAC
1 ATATAAATAC
*
53740 ATATAAATTTAAT
1 ATATAAA--T-AC
53753 ATATAAATAC
1 ATATAAATAC
**
53763 ATATAAATTT
1 ATATAAATAC
53773 ATATAAATA
1 ATATAAATA
53782 TTAAAAAAAT
Statistics
Matches: 34, Mismatches: 5, Indels: 6
0.76 0.11 0.13
Matches are distributed among these distances:
10 24 0.71
11 1 0.03
12 1 0.03
13 8 0.24
ACGTcount: A:0.58, C:0.04, G:0.00, T:0.38
Consensus pattern (10 bp):
ATATAAATAC
Found at i:53750 original size:23 final size:23
Alignment explanation
Indices: 53724--53777 Score: 101
Period size: 23 Copynumber: 2.4 Consensus size: 23
53714 ATTTAATTAC
53724 TTTAATATATAAATACATATAAA
1 TTTAATATATAAATACATATAAA
53747 TTTAATATATAAATACATATAAA
1 TTTAATATATAAATACATATAAA
53770 TTT-ATATA
1 TTTAATATA
53778 AATATTAAAA
Statistics
Matches: 31, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
22 5 0.16
23 26 0.84
ACGTcount: A:0.54, C:0.04, G:0.00, T:0.43
Consensus pattern (23 bp):
TTTAATATATAAATACATATAAA
Found at i:54997 original size:50 final size:49
Alignment explanation
Indices: 54892--54997 Score: 149
Period size: 49 Copynumber: 2.1 Consensus size: 49
54882 GGTTAGGTCG
* * **
54892 ATTTTGATAGAAAGTACAAAACTAACCCTAAAAGACTTAGTTTTGGTCA
1 ATTTTGATAGAAAGTACAAAACTAACCCTAAAAGACTCAATTTTAATCA
* *
54941 ATTTTGATAGAAAGTACAAAACTAATCCTAAAAAGACTCAATTTTAATCT
1 ATTTTGATAGAAAGTACAAAACTAACCCT-AAAAGACTCAATTTTAATCA
54991 ATTTTGA
1 ATTTTGA
54998 CTTTAGTACA
Statistics
Matches: 50, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
49 28 0.56
50 22 0.44
ACGTcount: A:0.42, C:0.13, G:0.11, T:0.33
Consensus pattern (49 bp):
ATTTTGATAGAAAGTACAAAACTAACCCTAAAAGACTCAATTTTAATCA
Found at i:55132 original size:49 final size:48
Alignment explanation
Indices: 55011--55187 Score: 165
Period size: 49 Copynumber: 3.6 Consensus size: 48
55001 TAGTACAAAT
* * *
55011 TTTTGGTCAGTTTTGATAGTAGGTACAAAACTAAGCCTAAAAGACTTAA
1 TTTTAGTCAGTTTCGATA-TAGGTACAAAACTAACCCTAAAAGACTTAA
* * * * *
55060 TTTTAGTCAATTTCAATGGTAGGTAGAAAACTAACCCTAAAAGACTCAA
1 TTTTAGTCAGTTTCGAT-ATAGGTACAAAACTAACCCTAAAAGACTTAA
* * * ** * *
55109 TTTTGGTTAGTTTCGATGATAGGTACAAAATTAACTTTAAAAGATTTAG
1 TTTTAGTCAGTTTCGAT-ATAGGTACAAAACTAACCCTAAAAGACTTAA
* *
55158 TTTTAGTTAGTTTTGACTATAGGTACAAAA
1 TTTTAGTCAGTTTCGA-TATAGGTACAAAA
55188 TCAAAACTAA
Statistics
Matches: 104, Mismatches: 22, Indels: 4
0.80 0.17 0.03
Matches are distributed among these distances:
49 103 0.99
50 1 0.01
ACGTcount: A:0.37, C:0.11, G:0.17, T:0.36
Consensus pattern (48 bp):
TTTTAGTCAGTTTCGATATAGGTACAAAACTAACCCTAAAAGACTTAA
Found at i:55188 original size:49 final size:49
Alignment explanation
Indices: 55019--55257 Score: 146
Period size: 49 Copynumber: 4.8 Consensus size: 49
55009 ATTTTTGGTC
* * * *
55019 AGTTTTGA-TAGTAGGTACAAAACTAAGC-CTAAAAGACTTAATTTTAGTC
1 AGTTTTGACTA-TAGGTACAAAATTAA-CTTTAAAAGACTTAGTTTTAGTT
* * * * * * ** * * *
55068 A-ATTTCAATGGTAGGTAGAAAACTAACCCTAAAAGACTCAATTTTGGTT
1 AGTTTTGACT-ATAGGTACAAAATTAACTTTAAAAGACTTAGTTTTAGTT
* *
55117 AGTTTCGA-TGATAGGTACAAAATTAACTTTAAAAGATTTAGTTTTAGTT
1 AGTTTTGACT-ATAGGTACAAAATTAACTTTAAAAGACTTAGTTTTAGTT
* * *
55166 AGTTTTGACTATAGGTACAAAATCAAAACTAACATTCAAAGACTTAGTTTTAGTC
1 AGTTTTGACTATAGGTACAAAAT------TAACTTTAAAAGACTTAGTTTTAGTT
* * *
55221 AATCTTGACTATAGGTACAAAACTAACTTT-AAAGACT
1 AGTTTTGACTATAGGTACAAAATTAACTTTAAAAGACT
55258 ATAAAATGTA
Statistics
Matches: 151, Mismatches: 28, Indels: 23
0.75 0.14 0.11
Matches are distributed among these distances:
48 12 0.08
49 93 0.62
50 4 0.03
55 42 0.28
ACGTcount: A:0.39, C:0.13, G:0.15, T:0.33
Consensus pattern (49 bp):
AGTTTTGACTATAGGTACAAAATTAACTTTAAAAGACTTAGTTTTAGTT
Found at i:55213 original size:55 final size:55
Alignment explanation
Indices: 55134--55242 Score: 155
Period size: 55 Copynumber: 2.0 Consensus size: 55
55124 ATGATAGGTA
* * * * * *
55134 CAAAATTAACTTTAAAAGATTTAGTTTTAGTTAGTTTTGACTATAGGTACAAAAT
1 CAAAACTAACATTAAAAGACTTAGTTTTAGTCAATCTTGACTATAGGTACAAAAT
*
55189 CAAAACTAACATTCAAAGACTTAGTTTTAGTCAATCTTGACTATAGGTACAAAA
1 CAAAACTAACATTAAAAGACTTAGTTTTAGTCAATCTTGACTATAGGTACAAAA
55243 CTAACTTTAA
Statistics
Matches: 47, Mismatches: 7, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
55 47 1.00
ACGTcount: A:0.41, C:0.12, G:0.12, T:0.35
Consensus pattern (55 bp):
CAAAACTAACATTAAAAGACTTAGTTTTAGTCAATCTTGACTATAGGTACAAAAT
Found at i:55965 original size:11 final size:11
Alignment explanation
Indices: 55949--55991 Score: 52
Period size: 11 Copynumber: 4.0 Consensus size: 11
55939 TGAAAAAATC
55949 TTTCTTTTTTT
1 TTTCTTTTTTT
*
55960 TTTCTTTTTCT
1 TTTCTTTTTTT
*
55971 CTT-TTTTTTT
1 TTTCTTTTTTT
*
55981 ATTCTTTTTTT
1 TTTCTTTTTTT
55992 CCCTTCTATT
Statistics
Matches: 27, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
10 8 0.30
11 19 0.70
ACGTcount: A:0.02, C:0.12, G:0.00, T:0.86
Consensus pattern (11 bp):
TTTCTTTTTTT
Found at i:55975 original size:15 final size:15
Alignment explanation
Indices: 55956--55992 Score: 51
Period size: 14 Copynumber: 2.5 Consensus size: 15
55946 ATCTTTCTTT
55956 TTTTTTTCTTT-TTC
1 TTTTTTTCTTTATTC
55970 TCTTTTTT-TTTATTC
1 T-TTTTTTCTTTATTC
55985 TTTTTTTC
1 TTTTTTTC
55993 CCTTCTATTT
Statistics
Matches: 20, Mismatches: 0, Indels: 5
0.80 0.00 0.20
Matches are distributed among these distances:
14 10 0.50
15 10 0.50
ACGTcount: A:0.03, C:0.14, G:0.00, T:0.84
Consensus pattern (15 bp):
TTTTTTTCTTTATTC
Found at i:55992 original size:23 final size:23
Alignment explanation
Indices: 55947--55989 Score: 63
Period size: 21 Copynumber: 2.0 Consensus size: 23
55937 TTTGAAAAAA
55947 TCTTTCTTTTTTTTTTCTTTTTC
1 TCTTTCTTTTTTTTTTCTTTTTC
*
55970 TC-TT-TTTTTTTATTCTTTTT
1 TCTTTCTTTTTTTTTTCTTTTT
55990 TTCCCTTCTA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
21 15 0.79
22 2 0.11
23 2 0.11
ACGTcount: A:0.02, C:0.14, G:0.00, T:0.84
Consensus pattern (23 bp):
TCTTTCTTTTTTTTTTCTTTTTC
Found at i:57286 original size:20 final size:19
Alignment explanation
Indices: 57261--57313 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 19
57251 ACCCTAGAAA
57261 GTATCGATACATAT-CTAGAT
1 GTATCGATACATATGCT--AT
*
57281 GTATCGATACATTATGCTTT
1 GTATCGATACA-TATGCTAT
57301 GTATCGATACATA
1 GTATCGATACATA
57314 CTCAATTATA
Statistics
Matches: 30, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
19 2 0.07
20 23 0.77
21 3 0.10
22 2 0.07
ACGTcount: A:0.32, C:0.15, G:0.15, T:0.38
Consensus pattern (19 bp):
GTATCGATACATATGCTAT
Found at i:63164 original size:13 final size:13
Alignment explanation
Indices: 63146--63171 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
63136 AATTTTTTTG
63146 TGTATCGATACAT
1 TGTATCGATACAT
63159 TGTATCGATACAT
1 TGTATCGATACAT
63172 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:63183 original size:19 final size:19
Alignment explanation
Indices: 63159--63208 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
63149 ATCGATACAT
63159 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
63178 TGTATCGATACATACTTTG
1 TGTATCGATACATACTTTG
63197 TGTATCGATACA
1 TGTATCGATACA
63209 AGTTTGGCTA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.28, C:0.16, G:0.16, T:0.40
Consensus pattern (19 bp):
TGTATCGATACATACTTTG
Found at i:63958 original size:19 final size:19
Alignment explanation
Indices: 63934--63995 Score: 58
Period size: 19 Copynumber: 3.3 Consensus size: 19
63924 TTAATAATGT
63934 AATTTACACACATATCAAA
1 AATTTACACACATATCAAA
** *
63953 AATTTAC-CTTA-AT-AATGT
1 AATTTACACACATATCAA--A
63971 AATTTACACACATATCAAA
1 AATTTACACACATATCAAA
63990 AATTTA
1 AATTTA
63996 TTTGCACATA
Statistics
Matches: 32, Mismatches: 6, Indels: 10
0.67 0.12 0.21
Matches are distributed among these distances:
16 2 0.06
17 2 0.06
18 9 0.28
19 15 0.47
20 2 0.06
21 2 0.06
ACGTcount: A:0.48, C:0.16, G:0.02, T:0.34
Consensus pattern (19 bp):
AATTTACACACATATCAAA
Found at i:63964 original size:37 final size:37
Alignment explanation
Indices: 63922--63995 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
63912 AAAATCTCCC
63922 CCTTAATAATGTAATTTACACACATATCAAAAATTTA
1 CCTTAATAATGTAATTTACACACATATCAAAAATTTA
63959 CCTTAATAATGTAATTTACACACATATCAAAAATTTA
1 CCTTAATAATGTAATTTACACACATATCAAAAATTTA
63996 TTTGCACATA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.46, C:0.16, G:0.03, T:0.35
Consensus pattern (37 bp):
CCTTAATAATGTAATTTACACACATATCAAAAATTTA
Found at i:65882 original size:20 final size:20
Alignment explanation
Indices: 65811--65890 Score: 70
Period size: 20 Copynumber: 3.8 Consensus size: 20
65801 GTATCGATAT
* *
65811 CATGTATGGATACAAAGAAA
1 CATGTATCGATACATAGAAA
* *
65831 AATGTATCGATACATTGAATTTCCA
1 CATGTATCGATACATAGAA-----A
*
65856 TATGTATCGATACATAGAAA
1 CATGTATCGATACATAGAAA
65876 CATGTATCGATACAT
1 CATGTATCGATACAT
65891 TTTGGACATT
Statistics
Matches: 48, Mismatches: 7, Indels: 10
0.74 0.11 0.15
Matches are distributed among these distances:
20 30 0.62
25 18 0.38
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.30
Consensus pattern (20 bp):
CATGTATCGATACATAGAAA
Found at i:72020 original size:13 final size:13
Alignment explanation
Indices: 72002--72027 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
71992 AATTTTTTTG
72002 TGTATCGATACAT
1 TGTATCGATACAT
72015 TGTATCGATACAT
1 TGTATCGATACAT
72028 ACTTTGTGTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:72596 original size:13 final size:13
Alignment explanation
Indices: 72578--72603 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
72568 TATAGCAAGT
72578 ATGTATCGATACA
1 ATGTATCGATACA
72591 ATGTATCGATACA
1 ATGTATCGATACA
72604 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:74863 original size:21 final size:21
Alignment explanation
Indices: 74830--74874 Score: 56
Period size: 21 Copynumber: 2.1 Consensus size: 21
74820 TTGCAAGTTG
*
74830 AAATAAAGAAGTTGGCTAATGA
1 AAATAAAGAAGTTAGCTAA-GA
*
74852 AAATAATG-AGTTAGCTAAGA
1 AAATAAAGAAGTTAGCTAAGA
74872 AAA
1 AAA
74875 ATGAAAACTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
20 5 0.24
21 9 0.43
22 7 0.33
ACGTcount: A:0.53, C:0.04, G:0.20, T:0.22
Consensus pattern (21 bp):
AAATAAAGAAGTTAGCTAAGA
Found at i:76699 original size:15 final size:15
Alignment explanation
Indices: 76679--76709 Score: 53
Period size: 15 Copynumber: 2.1 Consensus size: 15
76669 TAAAAATGTC
*
76679 CAAAATGAGGAAGCT
1 CAAAATGAAGAAGCT
76694 CAAAATGAAGAAGCT
1 CAAAATGAAGAAGCT
76709 C
1 C
76710 CAAACGAAAT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.48, C:0.16, G:0.23, T:0.13
Consensus pattern (15 bp):
CAAAATGAAGAAGCT
Found at i:78798 original size:13 final size:13
Alignment explanation
Indices: 78780--78818 Score: 69
Period size: 13 Copynumber: 3.0 Consensus size: 13
78770 ACATTTTTCT
78780 TTGTATCGATACA
1 TTGTATCGATACA
78793 TTGTATCGATACA
1 TTGTATCGATACA
*
78806 TTGTTTCGATACA
1 TTGTATCGATACA
78819 GGGTGATTAT
Statistics
Matches: 25, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
13 25 1.00
ACGTcount: A:0.28, C:0.15, G:0.15, T:0.41
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:81383 original size:13 final size:13
Alignment explanation
Indices: 81365--81390 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
81355 TATAGCAAGT
81365 ATGTATCGATACA
1 ATGTATCGATACA
81378 ATGTATCGATACA
1 ATGTATCGATACA
81391 CAAAAAATTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:86001 original size:13 final size:13
Alignment explanation
Indices: 85983--86010 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
85973 CATTATTCAG
85983 TGTATCGATACAT
1 TGTATCGATACAT
85996 TGTATCGATACAT
1 TGTATCGATACAT
86009 TG
1 TG
86011 ATCTTTGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:86005 original size:33 final size:33
Alignment explanation
Indices: 85963--86028 Score: 98
Period size: 33 Copynumber: 2.0 Consensus size: 33
85953 GCCAAGGAAA
85963 TGTATCGATACATT-ATTCAGTGTATCGATACAT
1 TGTATCGATACATTGA-TCAGTGTATCGATACAT
**
85996 TGTATCGATACATTGATCTTTGTATCGATACAT
1 TGTATCGATACATTGATCAGTGTATCGATACAT
86029 CTAGGAATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 29 0.97
34 1 0.03
ACGTcount: A:0.29, C:0.15, G:0.15, T:0.41
Consensus pattern (33 bp):
TGTATCGATACATTGATCAGTGTATCGATACAT
Found at i:90167 original size:22 final size:21
Alignment explanation
Indices: 90142--90185 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 21
90132 AATTTTGAAT
*
90142 TTCAATAATTTGTATCGATACA
1 TTCAATAA-ATGTATCGATACA
*
90164 TTCAGTAAATGTATCGATACA
1 TTCAATAAATGTATCGATACA
90185 T
1 T
90186 AAGTAATGCA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
21 13 0.65
22 7 0.35
ACGTcount: A:0.36, C:0.14, G:0.11, T:0.39
Consensus pattern (21 bp):
TTCAATAAATGTATCGATACA
Found at i:90176 original size:21 final size:19
Alignment explanation
Indices: 90152--90203 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
90142 TTCAATAATT
*
90152 TGTATCGATACATTCAGTAAA
1 TGTATCGATACA-TAAGT-AA
90173 TGTATCGATACATAAGTAA
1 TGTATCGATACATAAGTAA
*
90192 TGCATCGATACA
1 TGTATCGATACA
90204 GTGTATCGCT
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
19 13 0.45
20 4 0.14
21 12 0.41
ACGTcount: A:0.38, C:0.15, G:0.15, T:0.31
Consensus pattern (19 bp):
TGTATCGATACATAAGTAA
Found at i:90274 original size:13 final size:13
Alignment explanation
Indices: 90256--90281 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
90246 ATTTGTAGAA
90256 TGTATCGATACAT
1 TGTATCGATACAT
90269 TGTATCGATACAT
1 TGTATCGATACAT
90282 CGATCTTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TGTATCGATACAT
Found at i:92781 original size:51 final size:51
Alignment explanation
Indices: 92726--92845 Score: 170
Period size: 51 Copynumber: 2.4 Consensus size: 51
92716 GTTATTTCGA
** * *
92726 GGGGATACTCCAACCCCGATTTTATTTTTAAAATACCAATTT-TCCATAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCT-CACAATC
*
92777 GGGGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
1 GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
*
92828 GAGGATACTCCAACCCCG
1 GGGGATACTCCAACCCCG
92846 TAATTTTTGC
Statistics
Matches: 61, Mismatches: 7, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
51 60 0.98
52 1 0.02
ACGTcount: A:0.31, C:0.28, G:0.12, T:0.29
Consensus pattern (51 bp):
GGGGATACTCCAACCCCGATTTTATTTCCAAAACACCAATTTCTCACAATC
Found at i:92868 original size:79 final size:78
Alignment explanation
Indices: 92779--92996 Score: 231
Period size: 79 Copynumber: 2.7 Consensus size: 78
92769 CCATAATCGG
* *
92779 GGATACTCCAACTCCGATTTTATTTCCAAAACACCAATTTCTCACAATCGAGGATACTCCAACCC
1 GGATACTCCAACTCCGATTTTATTTCCAAAACACCGATTT-TCATAATCGAGGATACTCCAACCC
* * *
92844 CGTAATTTTTGCGA
65 CATAATTTTCGAGA
* * * *
92858 GGATACTCCAACTTCGATTTTATTTTCAAAATATCGATTTTCTATAATC-AGGGATACTCCAACC
1 GGATACTCCAACTCCGATTTTATTTCCAAAACACCGATTTTC-ATAATCGA-GGATACTCCAACC
* * *
92922 CTATTATTTTCGAGG
64 CCATAATTTTCGAGA
* * * * *
92937 GGATACTCCAACCCCAATTTTTATTTCTAGAACACCGATTTTTCATAATCGGGGATACTC
1 GGATACTCCAACTCCGA-TTTTATTTCCAAAACACCGA-TTTTCATAATCGAGGATACTC
92997 TAGCCCAATT
Statistics
Matches: 113, Mismatches: 21, Indels: 9
0.79 0.15 0.06
Matches are distributed among these distances:
78 3 0.03
79 76 0.67
80 29 0.26
81 5 0.04
ACGTcount: A:0.29, C:0.25, G:0.12, T:0.33
Consensus pattern (78 bp):
GGATACTCCAACTCCGATTTTATTTCCAAAACACCGATTTTCATAATCGAGGATACTCCAACCCC
ATAATTTTCGAGA
Found at i:98020 original size:64 final size:62
Alignment explanation
Indices: 97852--98355 Score: 527
Period size: 64 Copynumber: 7.9 Consensus size: 62
97842 TCTCTTTTCT
* ** * *
97852 AAGTCCACGACTCAGTGGCAATCTCTTC-TCAAAGTCCATAACTCAGTGGCAT-TTCTT-TTCT
1 AAGTCCACGACTCAGTGGC-ATCTTTTCTTCAAAGTCCACGACTTAGTGGCATCTT-TTCTTCA
* * * * * *
97913 AAGTCCACCACTTAGTGGCATCCTTTTCTTCCAAGACCACGACTTAGTGGAAATCTCTTC-TCA
1 AAGTCCACGACTCAGTGGCAT-CTTTTCTTCAAAGTCCACGACTTAGTGG-CATCTTTTCTTCA
*
97976 AAGTCCATGACTCAGTGGCATCTTTTTTCTTCAAAGTCCACGACTTAGTGGCAATCCTTTTCTTC
1 AAGTCCACGACTCAGTGGCATC--TTTTCTTCAAAGTCCACGACTTAGTGGC-AT-CTTTTCTTC
98041 A
62 A
** * *
98042 AAGTCCATAACTCTGTGGCATCTTTTCTTCAAAGTCCATGACTTAGTGGCATCTTTTTCTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTTAGTGGCATC-TTTTCTTCA
** * * *
98105 AAGAACACGACTCAGTGGCAATCTCTTCTTCAAAATCCACGACTCAGTGGCATCTTTTTTCTTCA
1 AAGTCCACGACTCAGTGGC-ATCTTTTCTTCAAAGTCCACGACTTAGTGGCATC--TTTTCTTCA
*
98170 AAGTCCACGACTCAGTGGCAATCCTTTTCTTCAAAGTCCACAACTCT-GTGGCATCTTTTCTTCA
1 AAGTCCACGACTCAGTGGC-AT-CTTTTCTTCAAAGTCCACGACT-TAGTGGCATCTTTTCTTCA
* * *
98234 AAGTCCACAACTCTGTGGCATCTTTTCTTCAAAGTCCACGACTTAGTGGCATTTTTTTTCTTCA
1 AAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTTAGTGGCA--TCTTTTCTTCA
* * *
98298 AAGTCCACGACTGAGTGGCATCTCTTATC-CCAAAGTCCACGACTCT-GTGGCACCTTTT
1 AAGTCCACGACTCAGTGGCATCT-TT-TCTTCAAAGTCCACGACT-TAGTGGCATCTTTT
98356 TCTTTTTAAA
Statistics
Matches: 376, Mismatches: 46, Indels: 40
0.81 0.10 0.09
Matches are distributed among these distances:
60 2 0.01
61 23 0.06
62 45 0.12
63 55 0.15
64 141 0.38
65 57 0.15
66 53 0.14
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.34
Consensus pattern (62 bp):
AAGTCCACGACTCAGTGGCATCTTTTCTTCAAAGTCCACGACTTAGTGGCATCTTTTCTTCA
Found at i:98190 original size:161 final size:160
Alignment explanation
Indices: 97852--98349 Score: 695
Period size: 161 Copynumber: 3.1 Consensus size: 160
97842 TCTCTTTTCT
* * *
97852 AAGTCCACGACTCAGTGGCAAT-CTCTTC-TCAAAGTCCATAACTCAGTGGCAT-TTCTT-TTCT
1 AAGTCCACGACTCAGTGGCAATCCTTTTCTTCAAAGTCCATAACTCTGTGGCATCTT-TTCTTCA
* * *
97913 AAGTCCACCACTTAGTGGCATCCTTTTCTTCCAAGACCACGACTTAGTGGAAATCTCTTC-TCAA
65 AAGTCCACAACTTAGTGGCAT-CTTTTCTTCAAAGACCACGACTTAGTGGCAATCTCTTCTTCAA
*
97977 AGTCCATGACTCAGTGGCATCTTTTTTCTTCA
129 AGTCCACGACTCAGTGGCATCTTTTTTCTTCA
*
98009 AAGTCCACGACTTAGTGGCAATCCTTTTCTTCAAAGTCCATAACTCTGTGGCATCTTTTCTTCAA
1 AAGTCCACGACTCAGTGGCAATCCTTTTCTTCAAAGTCCATAACTCTGTGGCATCTTTTCTTCAA
** * *
98074 AGTCCATGACTTAGTGGCATCTTTTTCTTCAAAGAACACGACTCAGTGGCAATCTCTTCTTCAAA
66 AGTCCACAACTTAGTGGCATC-TTTTCTTCAAAGACCACGACTTAGTGGCAATCTCTTCTTCAAA
*
98139 ATCCACGACTCAGTGGCATCTTTTTTCTTCA
130 GTCCACGACTCAGTGGCATCTTTTTTCTTCA
*
98170 AAGTCCACGACTCAGTGGCAATCCTTTTCTTCAAAGTCCACAACTCTGTGGCATCTTTTCTTCAA
1 AAGTCCACGACTCAGTGGCAATCCTTTTCTTCAAAGTCCATAACTCTGTGGCATCTTTTCTTCAA
* * * *
98235 AGTCCACAACTCT-GTGGCATCTTTTCTTCAAAGTCCACGACTTAGTGGCATTTTTTTTCTTCAA
66 AGTCCACAACT-TAGTGGCATCTTTTCTTCAAAGACCACGACTTAGTGGCA-ATCTCTTCTTCAA
* * * *
98299 AGTCCACGACTGAGTGGCATCTCTTATC-CCA
129 AGTCCACGACTCAGTGGCATCTTTTTTCTTCA
*
98330 AAGTCCACGACTCTGTGGCA
1 AAGTCCACGACTCAGTGGCA
98350 CCTTTTTCTT
Statistics
Matches: 305, Mismatches: 28, Indels: 13
0.88 0.08 0.04
Matches are distributed among these distances:
157 21 0.07
158 5 0.02
159 26 0.09
160 104 0.34
161 148 0.49
162 1 0.00
ACGTcount: A:0.24, C:0.28, G:0.15, T:0.33
Consensus pattern (160 bp):
AAGTCCACGACTCAGTGGCAATCCTTTTCTTCAAAGTCCATAACTCTGTGGCATCTTTTCTTCAA
AGTCCACAACTTAGTGGCATCTTTTCTTCAAAGACCACGACTTAGTGGCAATCTCTTCTTCAAAG
TCCACGACTCAGTGGCATCTTTTTTCTTCA
Found at i:98383 original size:34 final size:33
Alignment explanation
Indices: 98140--99029 Score: 576
Period size: 34 Copynumber: 27.6 Consensus size: 33
98130 TTCTTCAAAA
* * * * **
98140 TCCACGACTCAGTGGCATCTTTTTTCTTCAAAG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTTAAG
* * **
98173 TCCACGACTCAGTGGCAATCC-TTTT-CTTCAAAG
1 TCCACAACTCTGTGGC-A-CCTTTTTCCTTTTAAG
* **
98206 TCCACAACTCTGTGGCATC-TTTT-CTTCAAAG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTTAAG
* **
98237 TCCACAACTCTGTGGCATC-TTTT-CTTCAAAG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTTAAG
* ** * **
98268 TCCACGACT-TAGTGGCATTTTTTTTCTTCAAAG
1 TCCACAACTCT-GTGGCACCTTTTTCCTTTTAAG
* ** * * **
98301 TCCACGACTGAGTGGCATCTCTTATCC--CAAAG
1 TCCACAACTCTGTGGCACCT-TTTTCCTTTTAAG
* *
98333 TCCACGACTCTGTGGCACCTTTTTCTTTTTAAAG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTT-AAG
* *
98367 CCCACAACTCTATGGCACTCTTTTTTTTCCTTTTAAG
1 TCCACAACTCTGTGGCAC-C---TTTTTCCTTTTAAG
* *
98404 TCCACAACTCCGTGGCA-C-----CCTTTAAAG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTTAAG
* *
98431 CCCACAACTCCGTGGCACTCTTTTTCCTTTTAAG
1 TCCACAACTCTGTGGCAC-CTTTTTCCTTTTAAG
98465 TCCACAACTCCT-TGGCA-C-----CCTTTTAAG
1 TCCACAACT-CTGTGGCACCTTTTTCCTTTTAAG
* * *
98492 TCCATAACTCTGTGGCATCTTTTGCCTTTTAAG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTTAAG
*
98525 TCCACAACACTGTGGCACCTTTTT-CTTTTCAAAG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTT--AAG
* * *
98559 TCCACAACTTTGTGGCA-C-----CCTTCTATG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTTAAG
*
98586 TCCACAACTCTGTGGCACCTTTTTCTTTTTAAG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTTAAG
* * *
98619 TCCACAACTCCGCGGCATCTTTTTCCTTTTAAG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTTAAG
98652 TCCACAACTCTGTGGCACCTTTTT-CTTTTCAAAG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTT--AAG
*
98686 TCCATAACTCTGTGGCA-C-----CCTTTTAAG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTTAAG
*
98713 TCCACAACTCTGTGGCACCTTTTTCCCTTTAAAG
1 TCCACAACTCTGTGGCACCTTTTT-CCTTTTAAG
* * *
98747 CCCACAACACCGTGGCACTCTTTTTTCCTTTTAAG
1 TCCACAACTCTGTGGCAC-C-TTTTTCCTTTTAAG
** * *
98782 TCCACAACTCCATAGCA-C-----CCTTTAAAG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTTAAG
* *
98809 CCCACAACTCCGTGGCACTCTTTTTCCTTTTAAG
1 TCCACAACTCTGTGGCAC-CTTTTTCCTTTTAAG
* ** *
98843 TCCACAACTCCGTGGCTTCTTTTCTCCTTTTAAA
1 TCCACAACTCTGTGGCACCTTTT-TCCTTTTAAG
* *
98877 TCCACAACTCTGTGGCACCTTGTTCTTTTTAAG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTTAAG
*
98910 TCCACAACTCTGTGGCACC-TTTTCTTTTTAAG
1 TCCACAACTCTGTGGCACCTTTTTCCTTTTAAG
* * *
98942 TCCACGACTCGGTGGCACCCTTTTCCCTTTTAAG
1 TCCACAACTCTGTGGCA-CCTTTTTCCTTTTAAG
* * *
98976 CCCAC-ACTTCTGTGACATCCTTTTT--TTCTGCAAG
1 TCCACAAC-TCTGTGGCA-CCTTTTTCCTT-T-TAAG
*
99010 TCCACAACTCCGTGGCACCT
1 TCCACAACTCTGTGGCACCT
99030 CTAAGTCCAA
Statistics
Matches: 704, Mismatches: 89, Indels: 128
0.76 0.10 0.14
Matches are distributed among these distances:
26 2 0.00
27 105 0.15
28 3 0.00
29 11 0.02
30 1 0.00
31 63 0.09
32 67 0.10
33 191 0.27
34 201 0.29
35 28 0.04
36 5 0.01
37 17 0.02
38 10 0.01
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.35
Consensus pattern (33 bp):
TCCACAACTCTGTGGCACCTTTTTCCTTTTAAG
Found at i:98481 original size:61 final size:61
Alignment explanation
Indices: 98360--98928 Score: 345
Period size: 61 Copynumber: 9.0 Consensus size: 61
98350 CCTTTTTCTT
**
98360 TTTAAAGCCCACAACTCTATGGCACTCTTTTTTTTCCTTTTAAGTCCACAACTCC-GTGGCACCC
1 TTTAAAGCCCACAACTCCGTGGCA-TC---TTTTTCCTTTTAAGTCCACAACTCCTGTGGCACCC
98424 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCT-TGGCACCC
1 TTTAAAGCCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCTGTGGCACCC
* * * * * *
98485 TTTTAAGTCCATAACTCTGTGGCATCTTTTGCCTTTTAAGTCCACAAC-ACTGTGGCACCTTTTT
1 TTTAAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCTGTGGCACC-----
98549 C
61 C
* ** * *
98550 TTTTCAAAGTCCACAACTTTGTGGCA-C-----CCTTCTATGTCCACAACT-CTGTGGCACCTTT
1 -TTT-AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCTGTGGCACC---
98608 TTC
61 --C
* * *
98611 TTTTTAAGTCCACAACTCCGCGGCATCTTTTTCCTTTTAAGTCCACAACT-CTGTGGCACCTTTT
1 -TTTAAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCTGTGGCACC----
98675 TC
61 -C
* * *
98677 TTTTCAAAGTCCATAACTCTGTGGCA-C-----CCTTTTAAGTCCACAACT-CTGTGGCACCTTT
1 -TTT-AAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCTGTGGCA-----
98735 TTCCC
59 --CCC
* * *
98740 TTTAAAGCCCACAACACCGTGGCACTCTTTTTTCCTTTTAAGTCCACAACTCC-ATAGCACCC
1 TTTAAAGCCCACAACTCCGTGGCA-TC-TTTTTCCTTTTAAGTCCACAACTCCTGTGGCACCC
*
98802 TTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCC-GTGGCTTCTTTT
1 TTTAAAGCCCACAACTCCGTGGCA-TCTTTTTCCTTTTAAGTCCACAACTCCTGTGG---C---A
98866 CTCC
59 C-CC
* * * * *
98870 TTTTAAA-TCCACAACTCTGTGGCACCTTGTTCTTTTTAAGTCCACAACT-CTGTGGCACC
1 -TTTAAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCTGTGGCACC
98929 TTTTCTTTTT
Statistics
Matches: 424, Mismatches: 39, Indels: 88
0.77 0.07 0.16
Matches are distributed among these distances:
59 2 0.00
60 48 0.11
61 160 0.38
62 32 0.08
63 2 0.00
64 27 0.06
65 1 0.00
66 42 0.10
67 62 0.15
68 19 0.04
69 28 0.07
70 1 0.00
ACGTcount: A:0.21, C:0.32, G:0.12, T:0.35
Consensus pattern (61 bp):
TTTAAAGCCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACTCCTGTGGCACCC
Found at i:98561 original size:94 final size:91
Alignment explanation
Indices: 98395--98965 Score: 434
Period size: 94 Copynumber: 6.1 Consensus size: 91
98385 TCTTTTTTTT
* * * *
98395 CCTTTTAAGTCCACAACTCCGTGGCAC----CCTTTAAAGCCCACAACTCCGTGGCACTCTTTTT
1 CCTTTTAAGTCCATAACTCTGTGGCACTTTTCCTTTTAAGTCCACAACTCCGTGGCAC-CTTTTT
98456 CCTTTTAAGTCCACAACTCCT-TGGCAC
65 CCTTTTAAGTCCACAACT-CTGTGGCAC
* *
98483 CCTTTTAAGTCCATAACTCTGTGGCATCTTTTGCCTTTTAAGTCCACAACACTGTGGCACCTTTT
1 CCTTTTAAGTCCATAACTCTGTGGCA-CTTTT-CCTTTTAAGTCCACAACTCCGTGGCACCTTTT
*
98548 T-CTTTTCAAAGTCCACAACTTTGTGGCAC
64 TCCTTTT--AAGTCCACAACTCTGTGGCAC
* * * * * *
98577 CCTTCTATGTCCACAACTCTGTGGCACCTTTTTCTTTTTAAGTCCACAACTCCGCGGCATCTTTT
1 CCTTTTAAGTCCATAACTCTGTGGCA-C-TTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTT
98642 TCCTTTTAAGTCCACAACTCTGTGGCAC
64 TCCTTTTAAGTCCACAACTCTGTGGCAC
*
98670 CTTTTTCTTTTCAAAGTCCATAACTCTGTGGCAC----CCTTTTAAGTCCACAACTCTGTGGCAC
1 C-----CTTTT--AAGTCCATAACTCTGTGGCACTTTTCCTTTTAAGTCCACAACTCCGTGGCAC
* * * *
98731 CTTTTTCCCTTTAAAGCCCACAACACCGTGGCACTC
59 CTTTTT-CCTTTTAAGTCCACAACTCTGTGGCA--C
* ** * * *
98767 TTTTTTCCTTTTAAGTCCACAACTCCATAGCAC----CCTTTAAAGCCCACAACTCCGTGGCACT
1 ------CCTTTTAAGTCCATAACTCTGTGGCACTTTTCCTTTTAAGTCCACAACTCCGTGGCAC-
* *
98828 CTTTTTCCTTTTAAGTCCACAACTCCGTGGCTTCTTTTC
59 CTTTTTCCTTTTAAGTCCACAACTCTGTGG---C---AC
* * * *
98867 TCCTTTTAAATCCACAACTCTGTGGCACCTTGTTCTTTTTAAGTCCACAACTCTGTGGCACC-TT
1 -CCTTTTAAGTCCATAACTCTGTGGCA-CTT-TTCCTTTTAAGTCCACAACTCCGTGGCACCTTT
* * *
98931 TTCTTTTTAAGTCCACGACTCGGTGGCAC
63 TTCCTTTTAAGTCCACAACTCTGTGGCAC
98960 CCTTTT
1 CCTTTT
98966 CCCTTTTAAG
Statistics
Matches: 392, Mismatches: 51, Indels: 76
0.76 0.10 0.15
Matches are distributed among these distances:
88 24 0.06
89 1 0.00
92 11 0.03
93 29 0.07
94 122 0.31
95 54 0.14
96 64 0.16
97 7 0.02
98 9 0.02
99 27 0.07
100 20 0.05
101 23 0.06
103 1 0.00
ACGTcount: A:0.20, C:0.32, G:0.13, T:0.35
Consensus pattern (91 bp):
CCTTTTAAGTCCATAACTCTGTGGCACTTTTCCTTTTAAGTCCACAACTCCGTGGCACCTTTTTC
CTTTTAAGTCCACAACTCTGTGGCAC
Found at i:98653 original size:127 final size:128
Alignment explanation
Indices: 98482--98963 Score: 509
Period size: 127 Copynumber: 3.8 Consensus size: 128
98472 CTCCTTGGCA
* * *
98482 CCCTTTTAAGTCCATAACTCTGTGGCATCTTTTGCCTTTTAAGTCCACAACACTGTGGCACCTTT
1 CCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACACTGTGGCACCTTT
* *
98547 TTCTTTTCAAAGTCCACAACTTTGTGGCACCCTTCTATGTCCACAACTCTGTGGCACCTTTTT
66 TTCTTTTCAAAGTCCACAACTCTGTGGCACCCTTCTAAGTCCACAACTCTGTGGCACCTTTTT
* * *
98610 -CTTTTTAAGTCCACAACTCCGCGGCATCTTTTTCCTTTTAAGTCCACAACTCTGTGGCACCTTT
1 CCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACACTGTGGCACCTTT
* *
98674 TTCTTTTCAAAGTCCATAACTCTGTGGCACCCTTTTAAGTCCACAACTCTGTGGCACCTTTTT
66 TTCTTTTCAAAGTCCACAACTCTGTGGCACCCTTCTAAGTCCACAACTCTGTGGCACCTTTTT
* * * * ** *
98737 CCCTTTAAAGCCCACAACACCGTGGCACTCTTTTTTCCTTTTAAGTCCACAACTCCATAGCACC-
1 CCCTTTTAAGTCCACAACTCCGTGGCA-TC-TTTTTCCTTTTAAGTCCACAACACTGTGGCACCT
* * * * *
98801 ----C-TTT-AAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCGTGGCT
64 TTTTCTTTTCAAAGTCCACAACTCTGTGGCA--C-----CCTTCTAAGTCCACAACTCTGTGGCA
*
98860 TC-TTTT
122 CCTTTTT
* * * * * *
98866 CTCCTTTTAAATCCACAACTCTGTGGCACCTTGTTCTTTTTAAGTCCACAACTCTGTGGCACC-T
1 C-CCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACACTGTGGCACCTT
* * *
98930 TTTCTTTT-TAAGTCCACGACTCGGTGGCACCCTT
65 TTTCTTTTCAAAGTCCACAACTCTGTGGCACCCTT
98964 TTCCCTTTTA
Statistics
Matches: 299, Mismatches: 39, Indels: 34
0.80 0.10 0.09
Matches are distributed among these distances:
123 18 0.06
124 3 0.01
125 2 0.01
126 4 0.01
127 117 0.39
128 49 0.16
129 8 0.03
130 76 0.25
131 1 0.00
132 1 0.00
133 20 0.07
ACGTcount: A:0.20, C:0.31, G:0.13, T:0.36
Consensus pattern (128 bp):
CCCTTTTAAGTCCACAACTCCGTGGCATCTTTTTCCTTTTAAGTCCACAACACTGTGGCACCTTT
TTCTTTTCAAAGTCCACAACTCTGTGGCACCCTTCTAAGTCCACAACTCTGTGGCACCTTTTT
Found at i:98810 original size:62 final size:61
Alignment explanation
Indices: 98737--98853 Score: 216
Period size: 62 Copynumber: 1.9 Consensus size: 61
98727 GCACCTTTTT
98737 CCCTTTAAAGCCCACAACACCGTGGCACTCTTTTTTCCTTTTAAGTCCACAACTCCATAGCA
1 CCCTTTAAAGCCCACAACACCGTGGCACTC-TTTTTCCTTTTAAGTCCACAACTCCATAGCA
*
98799 CCCTTTAAAGCCCACAACTCCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCC
1 CCCTTTAAAGCCCACAACACCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCC
98854 GTGGCTTCTT
Statistics
Matches: 54, Mismatches: 1, Indels: 1
0.96 0.02 0.02
Matches are distributed among these distances:
61 25 0.46
62 29 0.54
ACGTcount: A:0.24, C:0.37, G:0.09, T:0.30
Consensus pattern (61 bp):
CCCTTTAAAGCCCACAACACCGTGGCACTCTTTTTCCTTTTAAGTCCACAACTCCATAGCA
Found at i:99119 original size:49 final size:47
Alignment explanation
Indices: 99031--99348 Score: 257
Period size: 49 Copynumber: 6.9 Consensus size: 47
99021 GTGGCACCTC
* * * *
99031 TAAGTCCAATATC-TTGGCCTTGAATCAGTATATTAGCACCTTTATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TATCTT
* * *
99079 TAAGACTAATGTCGCTGGCCTTGAATCAGCACATTGGCA-C---CTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTATCTT
* *
99122 TAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAACATCT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACC--TATC-T-T
* *
99173 TAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCT-ATCTT
* * * * *
99221 TAAGACTAATGTCGTTGGCCTTGAATCAACACATTGG---C-A----
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTATCTT
* * * *
99260 TAAGCCCAATATCGCTTGCCTTGAATCAGCATATTAGCATCTTCATCTT
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCA-CCT-ATCTT
* * *
99309 TAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCAC
1 TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCAC
99349 TTGTCGCAAC
Statistics
Matches: 215, Mismatches: 35, Indels: 40
0.74 0.12 0.14
Matches are distributed among these distances:
39 29 0.13
43 39 0.18
44 1 0.00
45 2 0.01
48 43 0.20
49 57 0.27
50 3 0.01
51 41 0.19
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (47 bp):
TAAGACCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTATCTT
Found at i:99124 original size:43 final size:43
Alignment explanation
Indices: 99076--99348 Score: 194
Period size: 51 Copynumber: 6.0 Consensus size: 43
99066 GCACCTTTAT
* *
99076 CTTTAAGACTAATGTCGCTGGCCTTGAATCAGCACATTGGCAC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* *
99119 CTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA-C
* * *
99163 TTTAACATCTTAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTC
1 -----C-T-TTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA---C
* * * *
99216 ATCTTTAAGACTAATGTCGTTGGCCTTGAATCAACACATTGGCA-
1 --CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
* * * *
99260 ---TAAGCCCAATATCGCTTGCCTTGAATCAGCATATTAGCATCTTC
1 CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCA----C
* *
99304 ATCTTTAAGACCAATGTCGCTGGCCTTGAATCAACACATTGGCAC
1 --CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
99349 TTGTCGCAAC
Statistics
Matches: 182, Mismatches: 28, Indels: 38
0.73 0.11 0.15
Matches are distributed among these distances:
39 31 0.17
43 38 0.21
44 1 0.01
45 1 0.01
48 33 0.18
49 35 0.19
50 3 0.02
51 39 0.21
53 1 0.01
ACGTcount: A:0.27, C:0.26, G:0.17, T:0.30
Consensus pattern (43 bp):
CTTTAAGACCAATATCGCTGGCCTTGAATCAGCACATTGGCAC
Found at i:99209 original size:94 final size:91
Alignment explanation
Indices: 99022--99215 Score: 271
Period size: 94 Copynumber: 2.1 Consensus size: 91
99012 CACAACTCCG
* * * *
99022 TGGCACCTCTAAGTCCAATATCTTGGCCTTGAATCAGTATATTAGCACCTTTATCTTTAAGACTA
1 TGGCACCTCTAAGTCCAATATCCTGGCCTTGAATCAGCATATTAGCACCTTTAACTTTAAGACCA
* *
99087 ATGTCGCTGGCCTTGAATCAGCACAT
66 ATATCGCTGGCCTTAAATCAGCACAT
* * *
99113 TGGCACCTTTAAGTCCAATATCGCTGGCCTTGAATCAGCATATTGGCACCTTTAACATCTTAAGT
1 TGGCACCTCTAAGTCCAATATC-CTGGCCTTGAATCAGCATATTAGCACCTTTAAC-T-TTAAGA
*
99178 CCAATATCGCTGGCCTTAAATCAGCATAT
63 CCAATATCGCTGGCCTTAAATCAGCACAT
99207 TGGCACCTC
1 TGGCACCTC
99216 ATCTTTAAGA
Statistics
Matches: 89, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
91 21 0.24
92 29 0.33
93 1 0.01
94 38 0.43
ACGTcount: A:0.26, C:0.26, G:0.16, T:0.31
Consensus pattern (91 bp):
TGGCACCTCTAAGTCCAATATCCTGGCCTTGAATCAGCATATTAGCACCTTTAACTTTAAGACCA
ATATCGCTGGCCTTAAATCAGCACAT
Found at i:99331 original size:88 final size:87
Alignment explanation
Indices: 99173--99347 Score: 278
Period size: 88 Copynumber: 2.0 Consensus size: 87
99163 TTTAACATCT
* * * *
99173 TAAGTCCAATATCGCTGGCCTTAAATCAGCATATTGGCACCTCATCTTTAAGACTAATGTCGTTG
1 TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTAGCACCTCATCTTTAAGACCAATGTCGCTG
99238 GCCTTGAATCAACACATTGGCA
66 GCCTTGAATCAACACATTGGCA
* * *
99260 TAAGCCCAATATCGCTTGCCTTGAATCAGCATATTAGCATCTTCATCTTTAAGACCAATGTCGCT
1 TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTAGCA-CCTCATCTTTAAGACCAATGTCGCT
99325 GGCCTTGAATCAACACATTGGCA
65 GGCCTTGAATCAACACATTGGCA
99348 CTTGTCGCAA
Statistics
Matches: 80, Mismatches: 7, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
87 35 0.44
88 45 0.56
ACGTcount: A:0.29, C:0.25, G:0.17, T:0.30
Consensus pattern (87 bp):
TAAGCCCAATATCGCTGGCCTTAAATCAGCATATTAGCACCTCATCTTTAAGACCAATGTCGCTG
GCCTTGAATCAACACATTGGCA
Found at i:109848 original size:20 final size:20
Alignment explanation
Indices: 109822--109877 Score: 67
Period size: 20 Copynumber: 2.8 Consensus size: 20
109812 AAAAAGATAG
* *
109822 AATGTATCGATACATTCATA
1 AATGTATCAATACATTCAAA
* *
109842 CATGTATCAATACATTGAAA
1 AATGTATCAATACATTCAAA
*
109862 AATGTATCTATACATT
1 AATGTATCAATACATT
109878 TAGGTAAAAA
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
20 30 1.00
ACGTcount: A:0.41, C:0.14, G:0.09, T:0.36
Consensus pattern (20 bp):
AATGTATCAATACATTCAAA
Found at i:109888 original size:71 final size:71
Alignment explanation
Indices: 109772--109958 Score: 268
Period size: 71 Copynumber: 2.6 Consensus size: 71
109762 TTTTAACTAG
** * * *
109772 ATGTATCAATACATT-ATTCAATGTATTGATACATCTAGGTAAAAAGATAGAATGTATCGATACA
1 ATGTATCAATACATTGA-AAAATGTATCGATACATCTAGGTAAAAAGACAGAATATATCGATACA
109836 TTCATAC
65 TTCATAC
* * *
109843 ATGTATCAATACATTGAAAAATGTATCTATACATTTAGGTAAAAAGACATAATATATCGATACAT
1 ATGTATCAATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGACAGAATATATCGATACAT
109908 TCATAC
66 TCATAC
* *
109914 ATGTATCGATACATTGAAAAATGTATCGATACATCTGGGTAAAAA
1 ATGTATCAATACATTGAAAAATGTATCGATACATCTAGGTAAAAA
109959 TGTGACTTTT
Statistics
Matches: 103, Mismatches: 12, Indels: 2
0.88 0.10 0.02
Matches are distributed among these distances:
71 102 0.99
72 1 0.01
ACGTcount: A:0.43, C:0.12, G:0.13, T:0.32
Consensus pattern (71 bp):
ATGTATCAATACATTGAAAAATGTATCGATACATCTAGGTAAAAAGACAGAATATATCGATACAT
TCATAC
Found at i:109922 original size:20 final size:20
Alignment explanation
Indices: 109897--109947 Score: 75
Period size: 20 Copynumber: 2.5 Consensus size: 20
109887 AGACATAATA
* *
109897 TATCGATACATTCATACATG
1 TATCGATACATTCAAAAATG
*
109917 TATCGATACATTGAAAAATG
1 TATCGATACATTCAAAAATG
109937 TATCGATACAT
1 TATCGATACAT
109948 CTGGGTAAAA
Statistics
Matches: 28, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.33
Consensus pattern (20 bp):
TATCGATACATTCAAAAATG
Found at i:110597 original size:33 final size:32
Alignment explanation
Indices: 110555--110616 Score: 90
Period size: 33 Copynumber: 1.9 Consensus size: 32
110545 CATATCCAGA
*
110555 TGTATCGATACAT-TATGCTTTGTATCGATATAT
1 TGTATCGATACATGT-T-CATTGTATCGATATAT
110588 TGTATCGATACATGTTCATTGTATCGATA
1 TGTATCGATACATGTTCATTGTATCGATA
110617 CATACTCAAT
Statistics
Matches: 27, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
32 12 0.44
33 14 0.52
34 1 0.04
ACGTcount: A:0.27, C:0.13, G:0.16, T:0.44
Consensus pattern (32 bp):
TGTATCGATACATGTTCATTGTATCGATATAT
Found at i:110634 original size:20 final size:19
Alignment explanation
Indices: 110590--110635 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
110580 CGATATATTG
** *
110590 TATCGATACATGTTCATTG
1 TATCGATACATACTCATTA
110609 TATCGATACATACTCAATTA
1 TATCGATACATACTC-ATTA
110629 TATCGAT
1 TATCGAT
110636 TCATGAAACT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
19 13 0.57
20 10 0.43
ACGTcount: A:0.33, C:0.17, G:0.11, T:0.39
Consensus pattern (19 bp):
TATCGATACATACTCATTA
Found at i:110703 original size:13 final size:13
Alignment explanation
Indices: 110685--110714 Score: 51
Period size: 13 Copynumber: 2.3 Consensus size: 13
110675 GATACATGGG
*
110685 ACATTGTGTCGAT
1 ACATTGTATCGAT
110698 ACATTGTATCGAT
1 ACATTGTATCGAT
110711 ACAT
1 ACAT
110715 GGTAAAAAGT
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.30, C:0.17, G:0.17, T:0.37
Consensus pattern (13 bp):
ACATTGTATCGAT
Found at i:110733 original size:33 final size:33
Alignment explanation
Indices: 110669--110737 Score: 84
Period size: 33 Copynumber: 2.1 Consensus size: 33
110659 CCAAGCGAAA
* ** * *
110669 TGTATCGATACATGGGACATTGTGTCGATACAT
1 TGTATCGATACATGGGAAAAAGTATCAATACAT
*
110702 TGTATCGATACATGGTAAAAAGTATCAATACAT
1 TGTATCGATACATGGGAAAAAGTATCAATACAT
110735 TGT
1 TGT
110738 GCCCAACGGC
Statistics
Matches: 30, Mismatches: 6, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
33 30 1.00
ACGTcount: A:0.33, C:0.13, G:0.20, T:0.33
Consensus pattern (33 bp):
TGTATCGATACATGGGAAAAAGTATCAATACAT
Found at i:117923 original size:52 final size:51
Alignment explanation
Indices: 117848--118034 Score: 247
Period size: 52 Copynumber: 3.7 Consensus size: 51
117838 ATTTAACTGG
* * *
117848 ATGTATC-ATACATTGAAGAATGTATCGATACATTTTGATCAAAAGCCTAGA
1 ATGTATCGATACAATGAATAATGTATCGATACATTTGGATCAAAA-CCTAGA
* *
117899 ATGCATCGATACAATGAATAATGTATCGATACATTTGGGTCAAAAACCTAGA
1 ATGTATCGATACAATGAATAATGTATCGATACATTTGGATC-AAAACCTAGA
* * *
117951 ATGTATCGATACAATAAATAATGTATCGATACATTTGGATC-AAACCCAAA
1 ATGTATCGATACAATGAATAATGTATCGATACATTTGGATCAAAACCTAGA
118001 ATGTATCGATACAAT-AA-AAGTGTATCGATACATT
1 ATGTATCGATACAATGAATAA-TGTATCGATACATT
118035 ATATTTTCAA
Statistics
Matches: 123, Mismatches: 10, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
48 2 0.02
49 16 0.13
50 22 0.18
51 6 0.05
52 73 0.59
53 4 0.03
ACGTcount: A:0.41, C:0.14, G:0.15, T:0.29
Consensus pattern (51 bp):
ATGTATCGATACAATGAATAATGTATCGATACATTTGGATCAAAACCTAGA
Found at i:118123 original size:20 final size:20
Alignment explanation
Indices: 118095--118165 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
118085 TTAAGAACTA
*
118095 TATTGATACATTTACTTATG
1 TATTGATACATTTACTTTTG
* *
118115 TATTAATACATATACTTTTG
1 TATTGATACATTTACTTTTG
* *
118135 TATCGATACATTCACTTGTTG
1 TATTGATACATTTACTT-TTG
118156 TATTGATACA
1 TATTGATACA
118166 AATTATAGAA
Statistics
Matches: 42, Mismatches: 8, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
20 30 0.71
21 12 0.29
ACGTcount: A:0.31, C:0.13, G:0.10, T:0.46
Consensus pattern (20 bp):
TATTGATACATTTACTTTTG
Found at i:119582 original size:33 final size:33
Alignment explanation
Indices: 119518--119583 Score: 78
Period size: 33 Copynumber: 2.0 Consensus size: 33
119508 ATAGGTTTAG
* *
119518 CTCTCTAACTTGTTAAGAAAGATACATGTTTGA
1 CTCTCTAACTTGTTAAGAAAGACACAAGTTTGA
* * * *
119551 CTCTTTAACTTGTTTAGAAGGACATAAGTTTGA
1 CTCTCTAACTTGTTAAGAAAGACACAAGTTTGA
119584 GTTTTGACCT
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.32, C:0.14, G:0.17, T:0.38
Consensus pattern (33 bp):
CTCTCTAACTTGTTAAGAAAGACACAAGTTTGA
Found at i:121740 original size:38 final size:38
Alignment explanation
Indices: 121689--121769 Score: 162
Period size: 38 Copynumber: 2.1 Consensus size: 38
121679 AATTTCAAGA
121689 TATTTCCTTTATTTATTTATTTTAAAGTACTCAAATTT
1 TATTTCCTTTATTTATTTATTTTAAAGTACTCAAATTT
121727 TATTTCCTTTATTTATTTATTTTAAAGTACTCAAATTT
1 TATTTCCTTTATTTATTTATTTTAAAGTACTCAAATTT
121765 TATTT
1 TATTT
121770 AAAATAAAAA
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
38 43 1.00
ACGTcount: A:0.28, C:0.10, G:0.02, T:0.59
Consensus pattern (38 bp):
TATTTCCTTTATTTATTTATTTTAAAGTACTCAAATTT
Found at i:124978 original size:34 final size:33
Alignment explanation
Indices: 124940--125014 Score: 93
Period size: 34 Copynumber: 2.3 Consensus size: 33
124930 TAATTTGATT
124940 TTTTATTAT-ATTATGCA-TATATATTTTATATATA
1 TTTTATTATAATTATG-ATTATAT-TTTTAT-TATA
*
124974 TTTTATT-TAATTATGATTATATTTTTATTTTA
1 TTTTATTATAATTATGATTATATTTTTATTATA
125006 TTTTATTAT
1 TTTTATTAT
125015 TTTTACTTTT
Statistics
Matches: 37, Mismatches: 1, Indels: 7
0.82 0.02 0.16
Matches are distributed among these distances:
32 10 0.27
33 9 0.24
34 18 0.49
ACGTcount: A:0.31, C:0.01, G:0.03, T:0.65
Consensus pattern (33 bp):
TTTTATTATAATTATGATTATATTTTTATTATA
Found at i:124996 original size:21 final size:20
Alignment explanation
Indices: 124970--125019 Score: 57
Period size: 22 Copynumber: 2.5 Consensus size: 20
124960 ATATTTTATA
124970 TATATTTTATTTAATTATGAT
1 TATATTTTATTTAATT-TGAT
* *
124991 TATATTTTTATTTTATTTTAT
1 TATA-TTTTATTTAATTTGAT
125012 TAT-TTTTA
1 TATATTTTA
125020 CTTTTTAAAA
Statistics
Matches: 26, Mismatches: 2, Indels: 4
0.81 0.06 0.12
Matches are distributed among these distances:
19 5 0.19
21 10 0.38
22 11 0.42
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (20 bp):
TATATTTTATTTAATTTGAT
Found at i:125006 original size:19 final size:20
Alignment explanation
Indices: 124984--125024 Score: 50
Period size: 19 Copynumber: 2.1 Consensus size: 20
124974 TTTTATTTAA
124984 TTATGATTA-TATTTTTA-TT
1 TTAT-ATTATTATTTTTACTT
*
125003 TTATTTTATTATTTTTACTT
1 TTATATTATTATTTTTACTT
125023 TT
1 TT
125025 TAAAATAACT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
18 3 0.16
19 12 0.63
20 4 0.21
ACGTcount: A:0.22, C:0.02, G:0.02, T:0.73
Consensus pattern (20 bp):
TTATATTATTATTTTTACTT
Found at i:125611 original size:42 final size:42
Alignment explanation
Indices: 125548--125650 Score: 115
Period size: 42 Copynumber: 2.5 Consensus size: 42
125538 AGCAAAAGAG
* * *
125548 AAAAAGTCTCTCGAGTTAAAGCCGATGGGCAGACAAAGGAAA
1 AAAAAGTCTCTCGAGTCAAAGCCAACGGGCAGACAAAGGAAA
* *
125590 AAAAAGTCTC-CTGGGTCAAAGCCAACGGGCAGACAAAGG-GA
1 AAAAAGTCTCTC-GAGTCAAAGCCAACGGGCAGACAAAGGAAA
125631 AAAAA-TCTCTC-AGGTCAAAG
1 AAAAAGTCTCTCGA-GTCAAAG
125651 TTGACGAGCA
Statistics
Matches: 52, Mismatches: 6, Indels: 8
0.79 0.09 0.12
Matches are distributed among these distances:
40 11 0.21
41 8 0.15
42 33 0.63
ACGTcount: A:0.42, C:0.19, G:0.25, T:0.14
Consensus pattern (42 bp):
AAAAAGTCTCTCGAGTCAAAGCCAACGGGCAGACAAAGGAAA
Found at i:125924 original size:44 final size:42
Alignment explanation
Indices: 125868--126029 Score: 148
Period size: 44 Copynumber: 3.7 Consensus size: 42
125858 AAAGGGTTAG
125868 AAAGGTTTGACTAGGGTGGTAACCATACGCTAAACAGAAAGGA
1 AAAGGTTTGACTAGGGTGGTAACCATACG-TAAACAGAAAGGA
*
125911 AAAGGATTTGACTAGGGTGGTAACCATACGTCAAATCA-AAATGA
1 AAAGG-TTTGACTAGGGTGGTAACCATACGT-AAA-CAGAAAGGA
* ** * * *
125955 GAAGAACTTAACTAGGGTGGTAACCATACGTTAGACTGAAATGTGA
1 AAAG-GTTTGACTAGGGTGGTAACCATACG-TAAACAGAAA-G-GA
* * *
126001 AAA-GTTTGACCAAGGTGATAACCATACGT
1 AAAGGTTTGACTAGGGTGGTAACCATACGT
126030 CAAATAGGAA
Statistics
Matches: 96, Mismatches: 15, Indels: 16
0.76 0.12 0.13
Matches are distributed among these distances:
43 8 0.08
44 81 0.84
45 3 0.03
46 4 0.04
ACGTcount: A:0.39, C:0.14, G:0.25, T:0.22
Consensus pattern (42 bp):
AAAGGTTTGACTAGGGTGGTAACCATACGTAAACAGAAAGGA
Found at i:126443 original size:44 final size:43
Alignment explanation
Indices: 126393--127586 Score: 632
Period size: 44 Copynumber: 27.3 Consensus size: 43
126383 AGATTTCACC
* ***
126393 TTTGACCAGGGTGGTAACCATATGTCAAACAGAAAGGATAGGGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGA-AAAAA
* * * *
126437 TTTGACCAGGGTGGTAACCATACTTCAAATTAGAATAAG-AAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAA-AGGAAAAAA
* * ** * *
126481 TCTGACCAGGGTGGTAACCGTACGTCAAATTGAAATGAGAAAAG
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGA-AAAAA
* * * *
126525 TTTAACCAAGATGGTAACCATACGTCAAACAAAAAGGAAAAAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAAAA-A
* * * * * **
126569 TTTGACCTGGGAGGTAACCATACATCAAATCATAATAAG-AGGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAA-AGGAAAAAA
* * * * * * *
126613 TCTAACTAGGGTGGTAACCATACGTTAGACTA-AAATGAGAAAAG
1 TTTGACCAGGGTGGTAACCATACGTCAAAC-AGAAAGGA-AAAAA
*
126657 TTTGACCAGGGTGGTAACCATACATCAAACAGAAA-G--AAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAAAAA
** * * * * *
126697 GGTGATCAAGGTGGTAACCATACGTCAAATTAGAATAAG-AAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAA-AGGAAAAAA
* * * * * * *
126741 TCTAACCAAGGTGGTAACCATAC-ACTAGACTGAAA-TAAGAAAA
1 TTTGACCAGGGTGGTAACCATACGTC-AAACAGAAAGGAA-AAAA
* * * * **
126784 GTTTGA-CTGGGTGGCAACCATATGTCAAATAGAAAGGAAAGGGA
1 -TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAA-AAA
* * *
126828 TTTGACCAAGGTGGTAACCATACATCAAATCA-AAATGAGAAAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAAAGGA-AAAAA
* * * ** *
126872 TCTGACCAGGGTGGTAACCCTATGTCGGACTA-AAATGAAAAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAAC-AGAAAGGAAAAAA
* * * * *
126915 GTTTGACCAAGGTGATAGCCATACGTCAAATA-AGAAGAAAAAAGA
1 -TTTGACCAGGGTGGTAACCATACGTCAAACAGA-AAGGAAAAA-A
* * * *
126960 TTTGACCAAGGTGGTAACCATATGTCAAATAGAAAGAAAAAAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAAAA-A
* * * *
127004 TTCGACCAGGGTGGTAAGCATACGTCAAATCA-AAATGAGAAGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAAAGGA-AAAAA
* * ** * *
127048 TCTGACCAGGGTGGTAACCATATGTCAGGCCA-AAATGAGAAAAG
1 TTTGACCAGGGTGGTAACCATACGTCA-AACAGAAAGGA-AAAAA
* * * * *
127092 TTTAACCATGGTGGTAACCATATGTCAAATAAAAAGGAAAGAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAA-AAA
* * **
127136 TTTGACCAGGGTGGTAACCGTACGTCAAATCAGAATAAG-AAGCA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAA-AGGAAAAAA
* * * ** ** ** *
127180 TCTGACCAGGATGGTAACCATATGTCAGGCTCAAATTAGAAAAG
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGA-AAAAA
* * * *
127224 TTTGACCAAGGTGGTAACCATACGTTAAGCAGAAAGGAAAGAGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAA-AAA
* * **
127268 TTTGACCAGGGTGGTAACCATACGTCAAATCTG-AATGAGAAGTA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAAAGGA-AAAAA
* * *
127312 TCTGACCAGGGTGGTAACCATATGTTAAACAGAAA--AAAAGGAA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAAA--AA
* * * * *
127355 TTTGACCAAGGTAGTAACCATATGTCAAATTAGAATAAG-AAAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAA-AGGAAAAAA
* * * * * *
127399 TCTGACCAGGGTGGTAACCATATGTTAGACTA-AAATGAGAAAAG
1 TTTGACCAGGGTGGTAACCATACGTCAAAC-AGAAAGGA-AAAAA
* * ***
127443 TTTGACCAGGGTGGTAACTACACGTCAAACAGAAAGGATAGGGA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGA-AAAAA
* *
127487 TTTGACCAGGGTGGTAACCATACATCAAATCAGAATAAG-AAAAA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAA-AGGAAAAAA
* * * * * *
127531 TCTGACCAGGGTGGTAACCATACGTTAGACTGAAATGAGAAAAG
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGA-AAAAA
127575 TTTGACCAGGGT
1 TTTGACCAGGGT
127587 CTAATCCAAT
Statistics
Matches: 870, Mismatches: 223, Indels: 114
0.72 0.18 0.09
Matches are distributed among these distances:
40 27 0.03
41 6 0.01
42 13 0.01
43 97 0.11
44 682 0.78
45 34 0.04
46 11 0.01
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (43 bp):
TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAAAAA
Found at i:126509 original size:88 final size:87
Alignment explanation
Indices: 126211--127586 Score: 605
Period size: 88 Copynumber: 15.6 Consensus size: 87
126201 GTTAGAAAGG
* * * * **
126211 TTTGACCATGGTGGTAAGCATACATCAAATAG-AAGGAAAGGGATTTGACCAGGGTGGTAACCAT
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGG-AAGAAATTTGACCAGGGTGGTAACCAT
* *
126275 ACGTCAAA-TCAAAATCAA-AAGAA
65 ACTTCAAACT-AGAAT-AAGAAGAA
* * * * * * ** * * *
126298 CTTAACTAGGGTGGTAACCATACATTAGATTGAAATGAGAA-AAGTTTGACTAGGGTGATAACCA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAA-G-GAAGAAATTTGACCAGGGTGGTAACCA
* *
126362 TA-TGTCAAAC-AGGAAGAAAAAAGATTTCA
64 TACT-TCAAACTA-GAA-TAAGAAGA----A
* **
126391 CCTTTGACCAGGGTGGTAACCATATGTCAAACAGAAAGGATAGGGATTTGACCAGGGTGGTAACC
1 --TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGA-AGAAATTTGACCAGGGTGGTAACC
*
126456 ATACTTCAAATTAGAATAAGAAGAA
63 ATACTTCAAACTAGAATAAGAAGAA
* * ** * * * *
126481 TCTGACCAGGGTGGTAACCGTACGTCAAATTGAAATGAGAA-AAGTTTAACCAAGATGGTAACCA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAA-G-GAAGAAATTTGACCAGGGTGGTAACCA
* * * * *
126545 TACGTCAAACAAAAAGGAAAAAG-A
64 TACTTCAAACTAGAA-TAAGAAGAA
* * * * * * * * *
126569 TTTGACCTGGGAGGTAACCATACATCAAATCATAATAAG-AGGAATCTAACTAGGGTGGTAACCA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAA-AGGAAGAAATTTGACCAGGGTGGTAACCA
* * *
126633 TACGTT-AGACTAAAATGAGAA-AA
64 TAC-TTCAAACTAGAATAAGAAGAA
* ** * *
126656 GTTTGACCAGGGTGGTAACCATACATCAAACAGAAA-G-A-AAAGGTGATCAAGGTGGTAACCAT
1 -TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAGAAATTTGACCAGGGTGGTAACCAT
* *
126718 ACGTCAAATTAGAATAAGAAGAA
65 ACTTCAAACTAGAATAAGAAGAA
* * * * * * * * *
126741 TCTAACCAAGGTGGTAACCATAC-ACTAGACTGAAA-TAAGAAAAGTTTGA-CTGGGTGGCAACC
1 TTTGACCAGGGTGGTAACCATACGTC-AAACAGAAAGGAAG-AAA-TTTGACCAGGGTGGTAACC
* *
126803 ATA-TGTCAAA-TAGAA-AGGAAAGGGA
63 ATACT-TCAAACTAGAATAAG-AA-GAA
* * *
126828 TTTGACCAAGGTGGTAACCATACATCAAATCA-AAATGAGAA-AAATCTGACCAGGGTGGTAACC
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAAA-G-GAAGAAATTTGACCAGGGTGGTAACC
* ** *
126891 CTA-TGTCGGACTAAAATGAA-AA-AA
63 ATACT-TCAAACTAGAAT-AAGAAGAA
* * * * * * *
126915 GTTTGACCAAGGTGATAGCCATACGTCAAATA-AGAAGAAAAAAGATTTGACCAAGGTGGTAACC
1 -TTTGACCAGGGTGGTAACCATACGTCAAACAGA-AAGGAAGAA-ATTTGACCAGGGTGGTAACC
* *
126979 ATA-TGTCAAA-TAGAA-AGAAAAAAGA
63 ATACT-TCAAACTAGAATA-AGAAGA-A
* * *
127004 TTCGACCAGGGTGGTAAGCATACGTCAAATCA-AAATGAGAAG-AATCTGACCAGGGTGGTAACC
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAAA-G-GAAGAAATTTGACCAGGGTGGTAACC
** * * *
127067 ATA-TGTCAGGCCAAAATGAGAA-AA
63 ATACT-TCAAACTAGAATAAGAAGAA
* * * * * *
127091 GTTTAACCATGGTGGTAACCATATGTCAAATAAAAAGGAAAGAAATTTGACCAGGGTGGTAACCG
1 -TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGG-AAGAAATTTGACCAGGGTGGTAACCA
* *
127156 TACGTCAAA-TCAGAATAAGAAGCA
64 TACTTCAAACT-AGAATAAGAAGAA
* * * ** ** * * *
127180 TCTGACCAGGATGGTAACCATATGTCAGGCTCAAATTAGAA-AAGTTTGACCAAGGTGGTAACCA
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAA--GGAAGAAATTTGACCAGGGTGGTAACCA
* *
127244 TACGTT-AAGC-AGAA-AGGAAAGAGA
64 TAC-TTCAAACTAGAATAAG-AAGA-A
* * * *
127268 TTTGACCAGGGTGGTAACCATACGTCAAATCTGAATGAGAAG-TATCTGACCAGGGTGGTAACCA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAAAG-GAAGAAATTTGACCAGGGTGGTAACCA
* *
127332 TA-TGTTAAAC-AGAA-AAAAAGGAA
64 TACT-TCAAACTAGAATAAGAA-GAA
* * * * * *
127355 TTTGACCAAGGTAGTAACCATATGTCAAATTAGAATAAGAA-AAATCTGACCAGGGTGGTAACCA
1 TTTGACCAGGGTGGTAACCATACGTCAAA-CAGAA-AGGAAGAAATTTGACCAGGGTGGTAACCA
* * * *
127419 TA-TGTTAGACTAAAATGAGAA-AA
64 TACT-TCAAACTAGAATAAGAAGAA
* * **
127442 GTTTGACCAGGGTGGTAACTACACGTCAAACAGAAAGGATAGGGATTTGACCAGGGTGGTAACCA
1 -TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGA-AGAAATTTGACCAGGGTGGTAACCA
* *
127507 TACATCAAA-TCAGAATAAGAAAAA
64 TACTTCAAACT-AGAATAAGAAGAA
* * * * *
127531 TCTGACCAGGGTGGTAACCATACGTTAGACTGAAATGAGAA-AAGTTTGACCAGGGT
1 TTTGACCAGGGTGGTAACCATACGTCAAACAGAAA-G-GAAGAAATTTGACCAGGGT
127587 CTAATCCAAT
Statistics
Matches: 973, Mismatches: 226, Indels: 179
0.71 0.16 0.13
Matches are distributed among these distances:
83 2 0.00
84 57 0.06
85 8 0.01
86 18 0.02
87 187 0.19
88 572 0.59
89 49 0.05
90 12 0.01
91 1 0.00
93 3 0.00
94 8 0.01
95 54 0.06
96 2 0.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (87 bp):
TTTGACCAGGGTGGTAACCATACGTCAAACAGAAAGGAAGAAATTTGACCAGGGTGGTAACCATA
CTTCAAACTAGAATAAGAAGAA
Found at i:126574 original size:132 final size:132
Alignment explanation
Indices: 126393--127586 Score: 1044
Period size: 132 Copynumber: 9.1 Consensus size: 132
126383 AGATTTCACC
* ** *
126393 TTTGACCAGGGTGGTAACCATATGTCAAACAGAAAGGATAGGGATTTGACCAGGGTGGTAACCAT
1 TTTGACCAGGGTGGTAACCATATGTCAAACAGAAAGGAAAAAGATTTGACCAAGGTGGTAACCAT
* * * *
126458 ACTTCAAATTAGAATAAGAAGAATCTGACCAGGGTGGTAACCGTACGTCAAATTGAAATGAGAAA
66 ACTTCAAATTAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTAAAATGAGAAA
126523 AG
131 AG
* * * * * ** *
126525 TTTAACCAAGATGGTAACCATACGTCAAACAAAAAGGAAAAAGATTTGACCTGGGAGGTAACCAT
1 TTTGACCAGGGTGGTAACCATATGTCAAACAGAAAGGAAAAAGATTTGACCAAGGTGGTAACCAT
* * * * * * *
126590 ACATCAAATCATAATAAGAGGAATCTAACTAGGGTGGTAACCATACGTTAGACTAAAATGAGAAA
66 ACTTCAAATTAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTAAAATGAGAAA
126655 AG
131 AG
** * *
126657 TTTGACCAGGGTGGTAACCATACATCAAACAGAAA-G-AAAAG--GTGATCAAGGTGGTAACCAT
1 TTTGACCAGGGTGGTAACCATATGTCAAACAGAAAGGAAAAAGATTTGACCAAGGTGGTAACCAT
* * * * * *
126718 ACGTCAAATTAGAATAAGAAGAATCTAACCAAGGTGGTAACCATAC-ACTAGACTGAAATAAGAA
66 ACTTCAAATTAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTC-AGACTAAAATGAGAA
126782 AAG
130 AAG
* * * **
126785 TTTGA-CTGGGTGGCAACCATATGTCAAATAGAAAGGAAAGGGATTTGACCAAGGTGGTAACCAT
1 TTTGACCAGGGTGGTAACCATATGTCAAACAGAAAGGAAAAAGATTTGACCAAGGTGGTAACCAT
* * * * * * * * *
126849 ACATCAAATCAAAATGAGAAAAATCTGACCAGGGTGGTAACCCTATGTCGGACTAAAATGAAAAA
66 ACTTCAAATTAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTAAAATGAGAAA
126914 AG
131 AG
* * * * * *
126916 TTTGACCAAGGTGATAGCCATACGTCAAATA-AGAAGAAAAAAGATTTGACCAAGGTGGTAACCA
1 TTTGACCAGGGTGGTAACCATATGTCAAACAGA-AAGGAAAAAGATTTGACCAAGGTGGTAACCA
* * * * *
126980 TA-TGTCAAA-TAGAAAGAAAAAAGATTC-GACCAGGGTGGTAAGCATACGTCA-AATCAAAATG
65 TACT-TCAAATTAG-AA-TAAGAAGAATCTGACCAGGGTGGTAACCATACGTCAGACT-AAAATG
127041 AGAAGAA-
126 AGAA-AAG
* ** * * *
127048 TCTGACCAGGGTGGTAACCATATGTCAGGCCA-AAATGAGAAAAG-TTTAACCATGGTGGTAACC
1 TTTGACCAGGGTGGTAACCATATGTCA-AACAGAAAGGA-AAAAGATTTGACCAAGGTGGTAACC
* * * *
127111 ATA-TGTCAAA-TA-AA-AAGGAAAGAAATTTGACCAGGGTGGTAACCGTACGTCA-AATCAGAA
64 ATACT-TCAAATTAGAATAA-G-AAG-AATCTGACCAGGGTGGTAACCATACGTCAGACT-AAAA
* *
127171 TAAGAAGCA-
124 TGAGAA-AAG
* * ** ** **
127180 TCTGACCAGGATGGTAACCATATGTCAGGCTCAAATTAGAAAAG-TTTGACCAAGGTGGTAACCA
1 TTTGACCAGGGTGGTAACCATATGTCAAACAGAAAGGA-AAAAGATTTGACCAAGGTGGTAACCA
** * * * *
127244 TACGTT--AAGCAGAA-AGGAAAGAGATTTGACCAGGGTGGTAACCATACGTCAAATCT-GAATG
65 TAC-TTCAAATTAGAATAAG-AAGA-ATCTGACCAGGGTGGTAACCATACGTCAGA-CTAAAATG
127305 AG--AAG
126 AGAAAAG
* * *
127310 TATCTGACCAGGGTGGTAACCATATGTTAAACAGAAA--AAAAGGAATTTGACCAAGGTAGTAAC
1 T-T-TGACCAGGGTGGTAACCATATGTCAAACAGAAAGGAAAAAG-ATTTGACCAAGGTGGTAAC
* * *
127373 CATA-TGTCAAATTAGAATAAGAAAAATCTGACCAGGGTGGTAACCATATGTTAGACTAAAATGA
63 CATACT-TCAAATTAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTAAAATGA
127437 GAAAAG
127 GAAAAG
* * * * ** *
127443 TTTGACCAGGGTGGTAACTACACGTCAAACAGAAAGGATAGGGATTTGACCAGGGTGGTAACCAT
1 TTTGACCAGGGTGGTAACCATATGTCAAACAGAAAGGAAAAAGATTTGACCAAGGTGGTAACCAT
* * * * *
127508 ACATCAAATCAGAATAAGAAAAATCTGACCAGGGTGGTAACCATACGTTAGACTGAAATGAGAAA
66 ACTTCAAATTAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTAAAATGAGAAA
127573 AG
131 AG
127575 TTTGACCAGGGT
1 TTTGACCAGGGT
127587 CTAATCCAAT
Statistics
Matches: 871, Mismatches: 149, Indels: 84
0.79 0.13 0.08
Matches are distributed among these distances:
127 24 0.03
128 79 0.09
129 9 0.01
130 15 0.02
131 168 0.19
132 544 0.62
133 30 0.03
134 2 0.00
ACGTcount: A:0.41, C:0.15, G:0.23, T:0.21
Consensus pattern (132 bp):
TTTGACCAGGGTGGTAACCATATGTCAAACAGAAAGGAAAAAGATTTGACCAAGGTGGTAACCAT
ACTTCAAATTAGAATAAGAAGAATCTGACCAGGGTGGTAACCATACGTCAGACTAAAATGAGAAA
AG
Found at i:133650 original size:19 final size:19
Alignment explanation
Indices: 133621--133682 Score: 88
Period size: 20 Copynumber: 3.2 Consensus size: 19
133611 TGCTTTGTAT
133621 TGATACATTGTATCGATACA
1 TGAT-CATTGTATCGATACA
*
133641 TGTTCATTGTATCGATACA
1 TGATCATTGTATCGATACA
*
133660 TGGATAATTGTATCGATACA
1 T-GATCATTGTATCGATACA
133680 TGA
1 TGA
133683 AACTGGCAGT
Statistics
Matches: 38, Mismatches: 3, Indels: 3
0.86 0.07 0.07
Matches are distributed among these distances:
19 18 0.47
20 20 0.53
ACGTcount: A:0.32, C:0.13, G:0.18, T:0.37
Consensus pattern (19 bp):
TGATCATTGTATCGATACA
Found at i:139920 original size:13 final size:13
Alignment explanation
Indices: 139902--139927 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
139892 ACAAAATTCC
139902 TTGTATCGATACA
1 TTGTATCGATACA
139915 TTGTATCGATACA
1 TTGTATCGATACA
139928 CTGGTAACTA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.15, G:0.15, T:0.38
Consensus pattern (13 bp):
TTGTATCGATACA
Found at i:142469 original size:19 final size:21
Alignment explanation
Indices: 142426--142478 Score: 76
Period size: 19 Copynumber: 2.7 Consensus size: 21
142416 CACACCCAGA
*
142426 TGTATCGATACAT-TATGCTT
1 TGTATCGATACATGTATGCAT
142446 TGTATCGATACATGT-T-CAT
1 TGTATCGATACATGTATGCAT
142465 TGTATCGATACATG
1 TGTATCGATACATG
142479 AAACCGGTAG
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
19 16 0.52
20 14 0.45
21 1 0.03
ACGTcount: A:0.26, C:0.15, G:0.17, T:0.42
Consensus pattern (21 bp):
TGTATCGATACATGTATGCAT
Found at i:142532 original size:20 final size:20
Alignment explanation
Indices: 142507--142560 Score: 76
Period size: 20 Copynumber: 2.7 Consensus size: 20
142497 CTACCATTGT
142507 TTGTATCGATACAT-A-GGACA
1 TTGTATCGATACATGATGG--A
142527 TTGTATCGATACATGATGGA
1 TTGTATCGATACATGATGGA
142547 TTGTATCGATACAT
1 TTGTATCGATACAT
142561 TGCTTGTAAC
Statistics
Matches: 32, Mismatches: 0, Indels: 4
0.89 0.00 0.11
Matches are distributed among these distances:
20 29 0.91
21 1 0.03
22 2 0.06
ACGTcount: A:0.31, C:0.13, G:0.20, T:0.35
Consensus pattern (20 bp):
TTGTATCGATACATGATGGA
Found at i:152903 original size:13 final size:13
Alignment explanation
Indices: 152884--152914 Score: 53
Period size: 13 Copynumber: 2.4 Consensus size: 13
152874 ACAATTCATC
152884 ATGTATCGATACA
1 ATGTATCGATACA
*
152897 TTGTATCGATACA
1 ATGTATCGATACA
152910 ATGTA
1 ATGTA
152915 CCATATATCA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
13 16 1.00
ACGTcount: A:0.35, C:0.13, G:0.16, T:0.35
Consensus pattern (13 bp):
ATGTATCGATACA
Found at i:152907 original size:33 final size:33
Alignment explanation
Indices: 152865--152962 Score: 144
Period size: 33 Copynumber: 3.0 Consensus size: 33
152855 TTTAAAGTAA
*
152865 TGTATCGATACAAT-TCATCATGTATCGATACAT
1 TGTATCGATACAATGT-ACCATGTATCGATACAT
* *
152898 TGTATCGATACAATGTACCATATATCAATACAT
1 TGTATCGATACAATGTACCATGTATCGATACAT
*
152931 TGTATTGATACAATGTACCATGTATCGATACA
1 TGTATCGATACAATGTACCATGTATCGATACA
152963 AACAGTGGTA
Statistics
Matches: 58, Mismatches: 6, Indels: 2
0.88 0.09 0.03
Matches are distributed among these distances:
33 57 0.98
34 1 0.02
ACGTcount: A:0.36, C:0.17, G:0.12, T:0.35
Consensus pattern (33 bp):
TGTATCGATACAATGTACCATGTATCGATACAT
Found at i:152960 original size:20 final size:20
Alignment explanation
Indices: 152898--152963 Score: 58
Period size: 20 Copynumber: 3.6 Consensus size: 20
152888 ATCGATACAT
152898 TGTATCGATACAATGTACCA
1 TGTATCGATACAATGTACCA
152918 --TAT--AT-CAA--TA-CA
1 TGTATCGATACAATGTACCA
*
152930 TTGTATTGATACAATGTACCA
1 -TGTATCGATACAATGTACCA
152951 TGTATCGATACAA
1 TGTATCGATACAA
152964 ACAGTGGTAA
Statistics
Matches: 36, Mismatches: 1, Indels: 18
0.65 0.02 0.33
Matches are distributed among these distances:
12 2 0.06
13 2 0.06
15 6 0.17
16 2 0.06
17 2 0.06
18 6 0.17
20 14 0.39
21 2 0.06
ACGTcount: A:0.38, C:0.17, G:0.12, T:0.33
Consensus pattern (20 bp):
TGTATCGATACAATGTACCA
Found at i:153037 original size:20 final size:19
Alignment explanation
Indices: 152992--153042 Score: 68
Period size: 19 Copynumber: 2.6 Consensus size: 19
152982 CTACCAGTTT
*
152992 CATGTATCGATACAATGAA
1 CATGTATCGATACAAAGAA
153011 CATGTATCGATACAAAGCATA
1 CATGTATCGATACAAAG-A-A
153032 -ATGTATCGATA
1 CATGTATCGATA
153043 AATCTGAGTG
Statistics
Matches: 29, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
19 16 0.55
20 12 0.41
21 1 0.03
ACGTcount: A:0.41, C:0.16, G:0.16, T:0.27
Consensus pattern (19 bp):
CATGTATCGATACAAAGAA
Found at i:154277 original size:36 final size:33
Alignment explanation
Indices: 154195--154286 Score: 127
Period size: 36 Copynumber: 2.8 Consensus size: 33
154185 CTTTACAACA
154195 CTATC-TTTC-AAGGCTAAGATAG-AAACCTCC
1 CTATCTTTTCAAAGGCTAAGATAGAAAACCTCC
*
154225 CTATCTTTTCATAGGCTAAGATAGAAAACCTTTCC
1 CTATCTTTTCAAAGGCTAAGATAGAAAACC--TCC
154260 CTATCTTTTTCAAAGGCTAAGATAGAA
1 CTATC-TTTTCAAAGGCTAAGATAGAA
154287 CCTCTCAATC
Statistics
Matches: 54, Mismatches: 2, Indels: 6
0.87 0.03 0.10
Matches are distributed among these distances:
30 5 0.09
31 4 0.07
32 12 0.22
33 5 0.09
35 8 0.15
36 20 0.37
ACGTcount: A:0.34, C:0.22, G:0.13, T:0.32
Consensus pattern (33 bp):
CTATCTTTTCAAAGGCTAAGATAGAAAACCTCC
Found at i:158864 original size:20 final size:19
Alignment explanation
Indices: 158837--158914 Score: 84
Period size: 20 Copynumber: 3.9 Consensus size: 19
158827 GTAAAAAGAC
*
158837 AAAATGTATCAATACATTG
1 AAAATGTATCGATACATTG
* *
158856 AAGAATGTATCGAGACATTC
1 AA-AATGTATCGATACATTG
*
158876 ATACATGTATCGATACATTG
1 A-AAATGTATCGATACATTG
*
158896 AAAAATGTTTCGATACATT
1 -AAAATGTATCGATACATT
158915 TGGGTACTTT
Statistics
Matches: 48, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
19 2 0.04
20 44 0.92
21 2 0.04
ACGTcount: A:0.41, C:0.13, G:0.14, T:0.32
Consensus pattern (19 bp):
AAAATGTATCGATACATTG
Done.