Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: VEPZ01000432.1 Hibiscus syriacus cultivar Beakdansim tig00000793_pilon, whole genome shotgun sequence
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 120878
ACGTcount: A:0.33, C:0.17, G:0.17, T:0.32
Found at i:370 original size:21 final size:21
Alignment explanation
Indices: 338--391 Score: 67
Period size: 21 Copynumber: 2.6 Consensus size: 21
328 ACAACAAAGC
**
338 GATCGAT-CTTTTCTTTGAGG
1 GATCGATCCTTTTCCCTGAGG
358 GATCG-TCCCTTTTCCCTGAGG
1 GATCGAT-CCTTTTCCCTGAGG
379 GATCGATCCTTTT
1 GATCGATCCTTTT
392 GAAATAGATC
Statistics
Matches: 29, Mismatches: 2, Indels: 5
0.81 0.06 0.14
Matches are distributed among these distances:
19 1 0.03
20 5 0.17
21 22 0.76
22 1 0.03
ACGTcount: A:0.13, C:0.24, G:0.22, T:0.41
Consensus pattern (21 bp):
GATCGATCCTTTTCCCTGAGG
Found at i:6299 original size:17 final size:19
Alignment explanation
Indices: 6277--6313 Score: 51
Period size: 20 Copynumber: 2.0 Consensus size: 19
6267 TTTAAGGACT
6277 TAATC-TAA-AAGATAAAA
1 TAATCTTAATAAGATAAAA
6294 TAATCTTAATTAAGATAAAA
1 TAATCTTAA-TAAGATAAAA
6314 ATATTAAAAT
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 5 0.29
18 3 0.18
20 9 0.53
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.30
Consensus pattern (19 bp):
TAATCTTAATAAGATAAAA
Found at i:9913 original size:256 final size:257
Alignment explanation
Indices: 8767--9958 Score: 1447
Period size: 256 Copynumber: 4.7 Consensus size: 257
8757 TTTAAATATT
* * * * * * *
8767 TTAAATGAGAAACTTTAAAAATCGTTTTCTAATTTTCTTACAAATAC-CATATAAAAGCATCTTG
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTT-TT-GAAATTCACGT-GAAAA-CATCTTG
* * * * *
8831 CCCAAAGGTCTTACAAATGGCCCGAAGAACTTATCATCTTACTCGAAAGCCTGATAGATGACCCG
62 CCCAAAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGCCTGACAGATGACCCG
* * * *
8896 AAGGATTTAATTATCATGCTTGAAAGATTTACTGATGGCTCGAAGGACTTACTAATTTTGGAAAT
127 AAGGATTTAATTATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC-GATTTTGGAAAT
*
8961 AGTTTACTGGGTAAGAAACTTTGG-AA--A-------ACTTTTCAAAAATTTCATTTTCTAAAAA
191 AATTTACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAA
*
9016 TA
256 CA
* * * * *
9018 CTAAATGAGAAAATTTGGAAATCGCTTTCTCATTTTTTGAAATTCACGTGAAAACATCCTACCCA
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTGAAATTCACGTGAAAACATCTTGCCCA
* * *
9083 AAGGTCTTACAGATGGCCCGAAGGACTTATCATCTTGCTCGGAACCCTGACAGATGACCCGAAGG
66 AAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGCCTGACAGATGACCCGAAGG
* * *
9148 ATTTAATTATCATGCTCGAAATG-CTTACTGATGGCCCAAAGGACTTACCAATTTGGAAATAATT
131 ATTTAATTATCATGCTCGAAA-GACTTACTGATGGCCCGAAGGACTTACGATTTTGGAAATAATT
* *
9212 TACTGGGTAAGAAACTTTGGAAATTACTTT-TTACTTTTCAAAATTTTCATTTTCTAAAAACA
195 TACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAACA
* * * * *
9274 TTAAATAAGAAATTTTGGAAATCGCTTTCTCATTTTTTGAAAGTCACGT-AAAACATCTTGCCCG
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTGAAATTCACGTGAAAACATCTTGCCCA
* * * *
9338 AAGGTCTTATAGATGGTCCGAAAGACTTATCATCTTACTCGGAAGCCTGACAGATGACCCGAAGG
66 AAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGCCTGACAGATGACCCGAAGG
* ** *
9403 ATTT-A--ATCA---TCGAAAAACTTACTGATGGCCTAAAGGCCTTATCGATTTTGGAAATAATT
131 ATTTAATTATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA-CGATTTTGGAAATAATT
* * * *
9462 TACTGGGTAAGAAACTTTGGAAATCATTTTTTTACTTTTCAAAAATTTTATTTTCTGAAAACA
195 TACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAACA
* ** * * ****
9525 TTAAATGAGAAACTTTGAAAATCACTTTCTCATTTTTTGAAGGTCGCGTGAAAATATCTTGTTTG
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTGAAATTCACGTGAAAACATCTTGCCCA
* * * *
9590 AAGGTCTTATAGATGGCCCAAAGGACTTATCATCTTGCTCGAAAGCCTGACAGATGACTCAAATG
66 AAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGCCTGACAGATGACCCGAAGG
9655 ATTTAATTATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTATCGATTTTGGAAATAATT
131 ATTTAATTATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTA-CGATTTTGGAAATAATT
* * * *
9720 TACTGTGTAAGAAACTTTGGAAATCGCTTTCTTA-TTTTTAAAAATTTCATTTTCTGAAAACA
195 TACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAACA
* * * * *
9782 TTAAATGAGAAACTTTGAAAATCACTTTCTCA-TTTTTCAAATTCATGTGAAAACGTCATGCCCA
1 TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTGAAATTCACGTGAAAACATCTTGCCCA
* * * * *
9846 AAGGTCTTATAGATGTCCCGAAGGACTTATCATCTTGCTCGAAAGACTTACAGATGACCTGAATG
66 AAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGCCTGACAGATGACCCGAAGG
* * * *
9911 ATTTAATCATCATGCTCGAAAGCCTTATTGATGGCCCGAAGGATTTAC
131 ATTTAATTATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTAC
9959 TAAGTAATAA
Statistics
Matches: 820, Mismatches: 100, Indels: 38
0.86 0.10 0.04
Matches are distributed among these distances:
247 33 0.04
248 112 0.14
249 38 0.05
250 48 0.06
251 102 0.12
252 76 0.09
253 1 0.00
254 1 0.00
255 81 0.10
256 194 0.24
257 58 0.07
258 76 0.09
ACGTcount: A:0.34, C:0.17, G:0.16, T:0.33
Consensus pattern (257 bp):
TTAAATGAGAAACTTTGAAAATCGCTTTCTCATTTTTTGAAATTCACGTGAAAACATCTTGCCCA
AAGGTCTTATAGATGGCCCGAAGGACTTATCATCTTGCTCGAAAGCCTGACAGATGACCCGAAGG
ATTTAATTATCATGCTCGAAAGACTTACTGATGGCCCGAAGGACTTACGATTTTGGAAATAATTT
ACTGGGTAAGAAACTTTGGAAATCACTTTCTTACTTTTCAAAAATTTCATTTTCTAAAAACA
Found at i:9956 original size:42 final size:42
Alignment explanation
Indices: 9851--9957 Score: 126
Period size: 42 Copynumber: 2.6 Consensus size: 42
9841 GCCCAAAGGT
* * *
9851 CTTATAGATGTCCCGAAGGACTT-ATCATCTTGCTCGAAAGA
1 CTTATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGA
* * * *
9892 CTTACAGATGACCTGAATGATTTAATCATCATGCTCGAAAGC
1 CTTATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGA
* *
9934 CTTATTGATGGCCCGAAGGATTTA
1 CTTATAGATGACCCGAAGGATTTA
9958 CTAAGTAATA
Statistics
Matches: 53, Mismatches: 12, Indels: 1
0.80 0.18 0.02
Matches are distributed among these distances:
41 18 0.34
42 35 0.66
ACGTcount: A:0.30, C:0.21, G:0.20, T:0.30
Consensus pattern (42 bp):
CTTATAGATGACCCGAAGGATTTAATCATCATGCTCGAAAGA
Found at i:13015 original size:25 final size:25
Alignment explanation
Indices: 12955--13035 Score: 94
Period size: 25 Copynumber: 3.3 Consensus size: 25
12945 CCATATTAAA
*
12955 ACTATATACTAGCATATTAAAAA-A-
1 ACTA-ATACTAACATATTAAAAACAT
* *
12979 ACTAATAGTAACATGTTAAAAACAT
1 ACTAATACTAACATATTAAAAACAT
* *
13004 AATAATACTAACATTTTAAAAACAT
1 ACTAATACTAACATATTAAAAACAT
13029 ACTAATA
1 ACTAATA
13036 TTATAAAAAC
Statistics
Matches: 48, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
23 15 0.31
24 5 0.10
25 28 0.58
ACGTcount: A:0.54, C:0.12, G:0.04, T:0.30
Consensus pattern (25 bp):
ACTAATACTAACATATTAAAAACAT
Found at i:13032 original size:19 final size:19
Alignment explanation
Indices: 13008--13045 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
12998 AAACATAATA
*
13008 ATACTAACATTTTAAAAAC
1 ATACTAACATTATAAAAAC
*
13027 ATACTAATATTATAAAAAC
1 ATACTAACATTATAAAAAC
13046 CACGTGTAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.55, C:0.13, G:0.00, T:0.32
Consensus pattern (19 bp):
ATACTAACATTATAAAAAC
Found at i:18274 original size:25 final size:25
Alignment explanation
Indices: 18246--18325 Score: 60
Period size: 25 Copynumber: 3.2 Consensus size: 25
18236 GTGACTAAAA
18246 TAAAATGAAATAAAAGATCACTAGC
1 TAAAATGAAATAAAAGATCACTAGC
*
18271 T-AAATCAGAAATAAACAG-TGACTAG-
1 TAAAAT--GAAATAAA-AGATCACTAGC
* *
18296 -AATGCATAAAATAAAAGATCACTAGC
1 TAA--AATGAAATAAAAGATCACTAGC
18322 TAAA
1 TAAA
18326 TCAGAAATAA
Statistics
Matches: 41, Mismatches: 5, Indels: 18
0.64 0.08 0.28
Matches are distributed among these distances:
24 6 0.15
25 15 0.37
26 14 0.34
27 6 0.15
ACGTcount: A:0.55, C:0.12, G:0.12, T:0.20
Consensus pattern (25 bp):
TAAAATGAAATAAAAGATCACTAGC
Found at i:18312 original size:51 final size:51
Alignment explanation
Indices: 18253--18363 Score: 204
Period size: 51 Copynumber: 2.2 Consensus size: 51
18243 AAATAAAATG
18253 AAATAAAAGATCACTAGCTAAATCAGAAATAAACAGTGACTAGAATGCATA
1 AAATAAAAGATCACTAGCTAAATCAGAAATAAACAGTGACTAGAATGCATA
*
18304 AAATAAAAGATCACTAGCTAAATCAGAAATAAACAGTTACTAGAATGCATA
1 AAATAAAAGATCACTAGCTAAATCAGAAATAAACAGTGACTAGAATGCATA
*
18355 GAATAAAAG
1 AAATAAAAG
18364 TTTAACACCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
51 58 1.00
ACGTcount: A:0.54, C:0.13, G:0.14, T:0.20
Consensus pattern (51 bp):
AAATAAAAGATCACTAGCTAAATCAGAAATAAACAGTGACTAGAATGCATA
Found at i:18346 original size:26 final size:26
Alignment explanation
Indices: 18252--18336 Score: 97
Period size: 26 Copynumber: 3.3 Consensus size: 26
18242 AAAATAAAAT
18252 GAAATAAAAGATCACTAGCTAAATCA
1 GAAATAAAAGATCACTAGCTAAATCA
*
18278 GAAATAAACAG-TGACTAG---AATGCA
1 GAAATAAA-AGATCACTAGCTAAAT-CA
*
18302 TAAAATAAAAGATCACTAGCTAAATCA
1 -GAAATAAAAGATCACTAGCTAAATCA
18329 GAAATAAA
1 GAAATAAA
18337 CAGTTACTAG
Statistics
Matches: 48, Mismatches: 4, Indels: 14
0.73 0.06 0.21
Matches are distributed among these distances:
23 3 0.06
24 4 0.08
25 13 0.27
26 21 0.44
27 4 0.08
28 3 0.06
ACGTcount: A:0.55, C:0.13, G:0.13, T:0.19
Consensus pattern (26 bp):
GAAATAAAAGATCACTAGCTAAATCA
Found at i:18357 original size:26 final size:25
Alignment explanation
Indices: 18277--18365 Score: 76
Period size: 25 Copynumber: 3.5 Consensus size: 25
18267 TAGCTAAATC
*
18277 AGAAATAAACAGTGACTAGAATGCAT
1 AGAAATAAA-AGTTACTAGAATGCAT
* * **
18303 A-AAATAAAAGATCACTAG-CTAAAT
1 AGAAATAAAAG-TTACTAGAATGCAT
18327 CAGAAATAAACAGTTACTAGAATGCAT
1 -AGAAATAAA-AGTTACTAGAATGCAT
18354 AG-AATAAAAGTT
1 AGAAATAAAAGTT
18366 TAACACCAAA
Statistics
Matches: 50, Mismatches: 8, Indels: 12
0.71 0.11 0.17
Matches are distributed among these distances:
24 9 0.18
25 20 0.40
26 16 0.32
27 5 0.10
ACGTcount: A:0.53, C:0.11, G:0.15, T:0.21
Consensus pattern (25 bp):
AGAAATAAAAGTTACTAGAATGCAT
Found at i:20422 original size:125 final size:124
Alignment explanation
Indices: 20208--20515 Score: 408
Period size: 125 Copynumber: 2.5 Consensus size: 124
20198 AGGAAATCTA
*
20208 GTCAGGAGATGGCACTGCTCATACTATGATGAATCTT-GACCATCT-AAGGTGATAACACTGCTC
1 GTCAGGA-ATGACACTGCTCATACTATGATGAATCTTGGA-CATCTAAAGGTGATAACACTGCTC
* *
20271 ATACTATGATAAGTCTTGGTTATCTAGGATTGACACGACTCCTACGTGTTGAGGAGTTCTG
64 ATACTATGATAAGTCTTGGTTATCTAGGATTGACACGACTCCAACGTGATGAGGAGTTCTG
* * * *
20332 GTTGATGG-ATGACATTGCTCATAATATGATGAATCTTGGACATCTAAAGGTGATAACACTGTTC
1 G-TCA-GGAATGACACTGCTCATACTATGATGAATCTTGGACATCTAAAGGTGATAACACTGCTC
* * * *
20396 ATACTATGATAAGTCTTGGTTATCTAGGATTGATATGGCTCCAATGTGATGAGGAGTTCTG
64 ATACTATGATAAGTCTTGGTTATCTAGGATTGACACGACTCCAACGTGATGAGGAGTTCTG
* * *
20457 GTCAGGTAATGACACTGCTCAT-CTGTTTATGAGTCTTGGACATCTAAAGGTGATAACAC
1 GTCAGG-AATGACACTGCTCATACT-ATGATGAATCTTGGACATCTAAAGGTGATAACAC
20516 AATTCCACTC
Statistics
Matches: 160, Mismatches: 17, Indels: 13
0.84 0.09 0.07
Matches are distributed among these distances:
123 2 0.01
124 35 0.22
125 121 0.76
126 2 0.01
ACGTcount: A:0.28, C:0.17, G:0.23, T:0.32
Consensus pattern (124 bp):
GTCAGGAATGACACTGCTCATACTATGATGAATCTTGGACATCTAAAGGTGATAACACTGCTCAT
ACTATGATAAGTCTTGGTTATCTAGGATTGACACGACTCCAACGTGATGAGGAGTTCTG
Found at i:20606 original size:126 final size:126
Alignment explanation
Indices: 20444--20873 Score: 567
Period size: 126 Copynumber: 3.4 Consensus size: 126
20434 CTCCAATGTG
* * * * *
20444 ATGAGGAGTTCTGGTCAGGTAATGACACTGCTCATCTGTTTATGAGTCTTGGACATCTAAAGGTG
1 ATGAGGAGATCTGATCAGGTAATGACACTGCCCATCTGTTCATGAGTCTTGGCCATCTAAAGGTG
* * * *
20509 ATAACACAATTCCACTCTGATGGGGATGGCTGGTTATCTGAGTTAATACAGCTCCTACATA
66 ATAACACAGTTCCACTCTGATGGGGACGGCTGGTTATCTGAGTTGATACAGCTTCTACATA
* * * * * *
20570 ATGAGGAGATCTGATCATGTGATGACACTTCCCATCTGTTTATGAGTCTTGTCCATCTAAGGGTG
1 ATGAGGAGATCTGATCAGGTAATGACACTGCCCATCTGTTCATGAGTCTTGGCCATCTAAAGGTG
* * * *
20635 ATAACACAGTTCCACTTTGATGGGGACGACTGGTTATCAGAGTTGACAC-GACTTCTACATA
66 ATAACACAGTTCCACTCTGATGGGGACGGCTGGTTATCTGAGTTGATACAG-CTTCTACATA
* * * *
20696 ATGAGGATATCTGATCATGTGATGACACTGCCCATTTGTTCATGAGTCTTGGCCATCT-AAGTGT
1 ATGAGGAGATCTGATCAGGTAATGACACTGCCCATCTGTTCATGAGTCTTGGCCATCTAAAG-GT
* * *
20760 GATAACACGGTTCCACTCTGATGGGGACGGCTGGTTATCTTAGTTGATACAACTTCTACATA
65 GATAACACAGTTCCACTCTGATGGGGACGGCTGGTTATCTGAGTTGATACAGCTTCTACATA
* * *
20822 ATGAGGAGATCTGGTTAGGTAATGACACTGCTCATCTGTTCATGAGTCTTGG
1 ATGAGGAGATCTGATCAGGTAATGACACTGCCCATCTGTTCATGAGTCTTGG
20874 TCAGAGAATT
Statistics
Matches: 264, Mismatches: 37, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
125 3 0.01
126 261 0.99
ACGTcount: A:0.26, C:0.19, G:0.24, T:0.32
Consensus pattern (126 bp):
ATGAGGAGATCTGATCAGGTAATGACACTGCCCATCTGTTCATGAGTCTTGGCCATCTAAAGGTG
ATAACACAGTTCCACTCTGATGGGGACGGCTGGTTATCTGAGTTGATACAGCTTCTACATA
Found at i:23414 original size:2 final size:2
Alignment explanation
Indices: 23407--23451 Score: 90
Period size: 2 Copynumber: 22.5 Consensus size: 2
23397 AGCTTTATTG
23407 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
1 TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA TA
23449 TA T
1 TA T
23452 TATTTTTTGT
Statistics
Matches: 43, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 43 1.00
ACGTcount: A:0.49, C:0.00, G:0.00, T:0.51
Consensus pattern (2 bp):
TA
Found at i:26119 original size:63 final size:63
Alignment explanation
Indices: 26019--26145 Score: 200
Period size: 63 Copynumber: 2.0 Consensus size: 63
26009 ATTTATGATG
* * *
26019 ATCATGCAGAATGTGAAGATGCAATTGCAGATTCAAAAGCAATGATCCTCTGAAATGCAATGC
1 ATCATGCAGAATGCGAAGATGCAAATGCAGATGCAAAAGCAATGATCCTCTGAAATGCAATGC
***
26082 ATCATGCAGAATGCGAAGATGCAAATGCAGATGCAAAATTGATGATCCTCTGAAATGCAATGC
1 ATCATGCAGAATGCGAAGATGCAAATGCAGATGCAAAAGCAATGATCCTCTGAAATGCAATGC
26145 A
1 A
26146 ACAAGGGACG
Statistics
Matches: 58, Mismatches: 6, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
63 58 1.00
ACGTcount: A:0.39, C:0.17, G:0.21, T:0.23
Consensus pattern (63 bp):
ATCATGCAGAATGCGAAGATGCAAATGCAGATGCAAAAGCAATGATCCTCTGAAATGCAATGC
Found at i:28124 original size:51 final size:51
Alignment explanation
Indices: 28065--28175 Score: 170
Period size: 51 Copynumber: 2.2 Consensus size: 51
28055 AAATAAAATG
*
28065 AAATAAAAGATAACTA-TCTAAATCAGAAATAAACAGTGACTAGAATGCATA
1 AAATAAAAGATAACTAGT-TAAATCAGAAATAAAAAGTGACTAGAATGCATA
* *
28116 AAATAAAAGATCACTAGTTAAATCAGAAATAAAAAGTTACTAGAATGCATA
1 AAATAAAAGATAACTAGTTAAATCAGAAATAAAAAGTGACTAGAATGCATA
*
28167 GAATAAAAG
1 AAATAAAAG
28176 TATAGCACCA
Statistics
Matches: 55, Mismatches: 4, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
51 54 0.98
52 1 0.02
ACGTcount: A:0.56, C:0.10, G:0.13, T:0.22
Consensus pattern (51 bp):
AAATAAAAGATAACTAGTTAAATCAGAAATAAAAAGTGACTAGAATGCATA
Found at i:28131 original size:25 final size:26
Alignment explanation
Indices: 28103--28175 Score: 64
Period size: 26 Copynumber: 2.8 Consensus size: 26
28093 ATAAACAGTG
28103 ACTAGAATGCATAAAATAAAAGA-TC
1 ACTAGAATGCATAAAATAAAAGAGTC
* *
28128 ACTAGTTAAAT-CA-GAAATAAAA-AGTT
1 ACTAG---AATGCATAAAATAAAAGAGTC
*
28154 ACTAGAATGCATAGAATAAAAG
1 ACTAGAATGCATAAAATAAAAG
28176 TATAGCACCA
Statistics
Matches: 37, Mismatches: 4, Indels: 13
0.69 0.07 0.24
Matches are distributed among these distances:
23 3 0.08
24 2 0.05
25 13 0.35
26 14 0.38
27 2 0.05
28 3 0.08
ACGTcount: A:0.55, C:0.10, G:0.14, T:0.22
Consensus pattern (26 bp):
ACTAGAATGCATAAAATAAAAGAGTC
Found at i:28147 original size:26 final size:26
Alignment explanation
Indices: 28064--28149 Score: 74
Period size: 26 Copynumber: 3.3 Consensus size: 26
28054 AAAATAAAAT
28064 GAAATAAAAGATAACTA-TCTAAATCA
1 GAAATAAAAGATAACTAGT-TAAATCA
*
28090 GAAATAAACAG-TGACTAG---AATGCA
1 GAAATAAA-AGATAACTAGTTAAAT-CA
* *
28114 TAAAATAAAAGATCACTAGTTAAATCA
1 -GAAATAAAAGATAACTAGTTAAATCA
28141 GAAATAAAA
1 GAAATAAAA
28150 AGTTACTAGA
Statistics
Matches: 48, Mismatches: 4, Indels: 16
0.71 0.06 0.24
Matches are distributed among these distances:
23 3 0.06
24 4 0.08
25 13 0.27
26 21 0.44
27 4 0.08
28 3 0.06
ACGTcount: A:0.57, C:0.10, G:0.12, T:0.21
Consensus pattern (26 bp):
GAAATAAAAGATAACTAGTTAAATCA
Found at i:28169 original size:26 final size:26
Alignment explanation
Indices: 28089--28174 Score: 72
Period size: 25 Copynumber: 3.4 Consensus size: 26
28079 TATCTAAATC
* *
28089 AGAAATAAACAGTGACTAGAATGCAT
1 AGAAATAAAAAGTCACTAGAATGCAT
* **
28115 A-AAAT-AAAAGATCACTAG-TTAAAT
1 AGAAATAAAAAG-TCACTAGAATGCAT
*
28139 CAGAAATAAAAAGTTACTAGAATGCAT
1 -AGAAATAAAAAGTCACTAGAATGCAT
28166 AG-AATAAAA
1 AGAAATAAAA
28175 GTATAGCACC
Statistics
Matches: 46, Mismatches: 9, Indels: 11
0.70 0.14 0.17
Matches are distributed among these distances:
24 7 0.15
25 18 0.39
26 13 0.28
27 8 0.17
ACGTcount: A:0.56, C:0.09, G:0.14, T:0.21
Consensus pattern (26 bp):
AGAAATAAAAAGTCACTAGAATGCAT
Found at i:30205 original size:3 final size:3
Alignment explanation
Indices: 30188--30240 Score: 53
Period size: 3 Copynumber: 19.0 Consensus size: 3
30178 TTTATTTCAT
*
30188 TTA TT- TTA TTTA TTA TTA TTA TT- TTG TT- TTA TTA -TA TTA -TA
1 TTA TTA TTA -TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
30229 TTA TTA TTA TTA
1 TTA TTA TTA TTA
30241 AATAATTAAT
Statistics
Matches: 44, Mismatches: 0, Indels: 12
0.79 0.00 0.21
Matches are distributed among these distances:
2 10 0.23
3 31 0.70
4 3 0.07
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (3 bp):
TTA
Found at i:30211 original size:13 final size:13
Alignment explanation
Indices: 30188--30240 Score: 51
Period size: 13 Copynumber: 4.2 Consensus size: 13
30178 TTTATTTCAT
30188 TTATT-TTATTTA
1 TTATTATTATTTA
30200 TTATTATTATTT-
1 TTATTATTATTTA
*
30212 TGTTTTATTATATTA
1 T-TATTATTAT-TTA
30227 -TATTATTA-TTA
1 TTATTATTATTTA
30238 TTA
1 TTA
30241 AATAATTAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 10
0.74 0.04 0.22
Matches are distributed among these distances:
11 3 0.09
12 8 0.24
13 21 0.62
14 2 0.06
ACGTcount: A:0.28, C:0.00, G:0.02, T:0.70
Consensus pattern (13 bp):
TTATTATTATTTA
Found at i:31997 original size:2 final size:2
Alignment explanation
Indices: 31990--32037 Score: 82
Period size: 2 Copynumber: 25.0 Consensus size: 2
31980 TGTTATTTAA
31990 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT -T AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT
32031 AT A- AT AT
1 AT AT AT AT
32038 TTTCTTTAAA
Statistics
Matches: 44, Mismatches: 0, Indels: 4
0.92 0.00 0.08
Matches are distributed among these distances:
1 2 0.05
2 42 0.95
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:34666 original size:21 final size:21
Alignment explanation
Indices: 34642--34681 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
34632 CTTTTCATAC
34642 ATGCATTTACATTTTGTATCT
1 ATGCATTTACATTTTGTATCT
*
34663 ATGCATTTCCATTTTGTAT
1 ATGCATTTACATTTTGTAT
34682 TCTTACTTTT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.23, C:0.15, G:0.10, T:0.53
Consensus pattern (21 bp):
ATGCATTTACATTTTGTATCT
Found at i:36964 original size:2 final size:2
Alignment explanation
Indices: 36957--36982 Score: 52
Period size: 2 Copynumber: 13.0 Consensus size: 2
36947 ATCGTTTTAA
36957 AT AT AT AT AT AT AT AT AT AT AT AT AT
1 AT AT AT AT AT AT AT AT AT AT AT AT AT
36983 CCTTTGTTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 24 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
AT
Found at i:37301 original size:14 final size:13
Alignment explanation
Indices: 37282--37347 Score: 57
Period size: 12 Copynumber: 5.1 Consensus size: 13
37272 TCCAGCAAAG
*
37282 AAAGAAGAAGGAAA
1 AAAGAA-AAAGAAA
37296 AAAGAAAAAG-AA
1 AAAGAAAAAGAAA
*
37308 AAAGAAAAA-ACA
1 AAAGAAAAAGAAA
*
37320 AAACAAAAAGGAAAA
1 AAAGAAAAA-G-AAA
37335 AAAGAAAAA-AAA
1 AAAGAAAAAGAAA
37347 A
1 A
37348 GGAAAATTGA
Statistics
Matches: 43, Mismatches: 5, Indels: 10
0.74 0.09 0.17
Matches are distributed among these distances:
12 24 0.56
13 3 0.07
14 6 0.14
15 10 0.23
ACGTcount: A:0.82, C:0.03, G:0.15, T:0.00
Consensus pattern (13 bp):
AAAGAAAAAGAAA
Found at i:37305 original size:6 final size:6
Alignment explanation
Indices: 37294--37353 Score: 52
Period size: 6 Copynumber: 9.7 Consensus size: 6
37284 AGAAGAAGGA
*
37294 AAAAAG AAAAAG AAAAAG AAAAA- ACAAAAC AAAAAGG AAAAAAAG AAAAA-
1 AAAAAG AAAAAG AAAAAG AAAAAG A-AAAAG AAAAA-G --AAAAAG AAAAAG
*
37344 AAAAGG AAAA
1 AAAAAG AAAA
37354 TTGAATCAAG
Statistics
Matches: 46, Mismatches: 2, Indels: 12
0.77 0.03 0.20
Matches are distributed among these distances:
5 5 0.11
6 34 0.74
7 1 0.02
8 1 0.02
9 5 0.11
ACGTcount: A:0.83, C:0.03, G:0.13, T:0.00
Consensus pattern (6 bp):
AAAAAG
Found at i:37311 original size:12 final size:11
Alignment explanation
Indices: 37293--37353 Score: 50
Period size: 13 Copynumber: 5.0 Consensus size: 11
37283 AAGAAGAAGG
37293 AAAAAAGAAAA
1 AAAAAAGAAAA
37304 AGAAAAAGAAAAA
1 A-AAAAAG-AAAA
*
37317 ACAAAACAAAAAGGA
1 A-AAAA-AGAAA--A
37332 AAAAAAGAAAA
1 AAAAAAGAAAA
*
37343 AAAAAGGAAAA
1 AAAAAAGAAAA
37354 TTGAATCAAG
Statistics
Matches: 41, Mismatches: 4, Indels: 10
0.75 0.07 0.18
Matches are distributed among these distances:
11 12 0.29
12 6 0.15
13 16 0.39
14 5 0.12
15 2 0.05
ACGTcount: A:0.84, C:0.03, G:0.13, T:0.00
Consensus pattern (11 bp):
AAAAAAGAAAA
Found at i:37316 original size:19 final size:18
Alignment explanation
Indices: 37278--37353 Score: 89
Period size: 19 Copynumber: 4.1 Consensus size: 18
37268 CTCATCCAGC
* *
37278 AAAGAAAGAAGAAGGAAA
1 AAAGAAAAAAAAAGGAAA
*
37296 AAAGAAAAAGAAAAAGAAA
1 AAAGAAAAA-AAAAGGAAA
*
37315 AAACAAAACAAAAAGGAAAA
1 AAAGAAAA-AAAAAGG-AAA
37335 AAAGAAAAAAAAAGGAAA
1 AAAGAAAAAAAAAGGAAA
37353 A
1 A
37354 TTGAATCAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 6
0.80 0.10 0.10
Matches are distributed among these distances:
18 12 0.24
19 26 0.53
20 11 0.22
ACGTcount: A:0.80, C:0.03, G:0.17, T:0.00
Consensus pattern (18 bp):
AAAGAAAAAAAAAGGAAA
Found at i:39576 original size:64 final size:65
Alignment explanation
Indices: 39503--39727 Score: 188
Period size: 64 Copynumber: 3.5 Consensus size: 65
39493 TGTTTGAATG
* ** **
39503 TGCACCGATGCATTGGTAATGCATCAATGCA-CTCTTTTAA-AATAAATACATCGAATGCAATT-
1 TGCATCGATGCATAAGTAATGCATCAATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTG
39565 CA
64 CA
* * * **
39567 TGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAATGAAACATCGAATGCAATTGGG
1 TGCATCGATGCATAAGTAATGCATCAATGCATCCCATTAATAATAAAACATCGAATGCAATTGCA
* * * ** * * * **
39632 TGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAATAATACATCGAATAC-CTTTTA
1 TGCATCGATGCATAAGTAATGCATCAATGCATCCCATTAATAATAAAACATCGAATGCAATTGCA
* * * *
39696 TGCACCGATGCATCAGTAGTGCATCGATGCAT
1 TGCATCGATGCATAAGTAATGCATCAATGCAT
39728 ACGTTCATTA
Statistics
Matches: 135, Mismatches: 23, Indels: 6
0.82 0.14 0.04
Matches are distributed among these distances:
64 77 0.57
65 58 0.43
ACGTcount: A:0.33, C:0.21, G:0.19, T:0.27
Consensus pattern (65 bp):
TGCATCGATGCATAAGTAATGCATCAATGCATCCCATTAATAATAAAACATCGAATGCAATTGCA
Found at i:39655 original size:65 final size:64
Alignment explanation
Indices: 39547--39727 Score: 238
Period size: 65 Copynumber: 2.8 Consensus size: 64
39537 TTTTAAAATA
**
39547 AATACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCCCATTAATAAT
1 AATACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAAT
** *
39611 GAA-ACATCGAATGCAATTGGGTGCATCGATGCATAAGGAGTGCATCGATGCATCCCAGCAATAA
1 -AATACATCGAATGCAATT-CATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAA
39675 T
64 T
* ** * * *
39676 AATACATCGAATACCTTTTATGCACCGATGCATCAGTAGTGCATCGATGCAT
1 AATACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCAT
39728 ACGTTCATTA
Statistics
Matches: 101, Mismatches: 13, Indels: 5
0.85 0.11 0.04
Matches are distributed among these distances:
64 46 0.46
65 55 0.54
ACGTcount: A:0.34, C:0.21, G:0.19, T:0.26
Consensus pattern (64 bp):
AATACATCGAATGCAATTCATGCATCGATGCATAAGTAGTGCATCGATGCATCCCAGCAATAAT
Found at i:40053 original size:12 final size:12
Alignment explanation
Indices: 40036--40070 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
40026 ATATATGTTC
40036 ATGTGATATGAT
1 ATGTGATATGAT
40048 ATGTGATATGAT
1 ATGTGATATGAT
40060 ATGTGATATGA
1 ATGTGATATGA
40071 GAACATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:40128 original size:29 final size:29
Alignment explanation
Indices: 40086--40159 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
40076 TGATATGAAG
40086 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
40115 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
40144 TGACATGAG-TACATGA
1 TGACATGAGCTACATGA
40160 ACATATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:43274 original size:64 final size:64
Alignment explanation
Indices: 43201--43424 Score: 204
Period size: 64 Copynumber: 3.5 Consensus size: 64
43191 TGTTTGAATG
* * * ** *
43201 TGCACCGATGCATTGGTAATGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGTAATTC
1 TGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTC
43264 A
64 A
* * * **
43265 TGCATCGATGCATAAGTAGTGCATTGATGCATCCCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
* ** * * ** *
43329 TGCATCGATGCATAAGG-AGTGCATCGATGCATCCTAACAATAATAATACATCGAATACCTTTTA
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
*
43393 TGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCAT
43425 ACCTTCATTA
Statistics
Matches: 131, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
63 1 0.01
64 122 0.93
65 8 0.06
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:43750 original size:12 final size:12
Alignment explanation
Indices: 43733--43767 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
43723 ATATATGTTC
43733 ATGTGATATGAT
1 ATGTGATATGAT
43745 ATGTGATATGAT
1 ATGTGATATGAT
43757 ATGTGATATGA
1 ATGTGATATGA
43768 GAACATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:43825 original size:29 final size:29
Alignment explanation
Indices: 43783--43856 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
43773 TGATATGAAG
43783 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
43812 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
43841 TGACATGAG-TACATGA
1 TGACATGAGCTACATGA
43857 ACATATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:43959 original size:15 final size:15
Alignment explanation
Indices: 43941--43973 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
43931 GAGGGTATAA
43941 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
43956 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
43971 TAG
1 TAG
43974 GAGTCCTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.30
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:46981 original size:64 final size:64
Alignment explanation
Indices: 46908--47131 Score: 204
Period size: 64 Copynumber: 3.5 Consensus size: 64
46898 TGTTTGAATG
* * * ** *
46908 TGCACCGATGCATTGGTAATGCATCGATGCA-CTCTTTTAA-AATAAATACATCGAATGTAATTC
1 TGCATCGATGCATAGGTAGTGCATCGATGCATC-CCATTAATAATAAA-ACATCGAATGCAATTC
46971 A
64 A
* * * **
46972 TGCATCGATGCATAAGTAGTGCATTGATGCATCCCATTAATAATGAAACATCGAATGCAATTGG
1 TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
* ** * * ** *
47036 TGCATCGATGCATAAGG-AGTGCATCGATGCATCCTAACAATAATAATACATCGAATACCTTTTA
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
*
47100 TGCACCGATGCATCA-GTAGTGCATCGATGCAT
1 TGCATCGATGCAT-AGGTAGTGCATCGATGCAT
47132 ACCTTCATTA
Statistics
Matches: 131, Mismatches: 25, Indels: 8
0.80 0.15 0.05
Matches are distributed among these distances:
63 1 0.01
64 122 0.93
65 8 0.06
ACGTcount: A:0.33, C:0.20, G:0.18, T:0.29
Consensus pattern (64 bp):
TGCATCGATGCATAGGTAGTGCATCGATGCATCCCATTAATAATAAAACATCGAATGCAATTCA
Found at i:47457 original size:12 final size:12
Alignment explanation
Indices: 47440--47474 Score: 70
Period size: 12 Copynumber: 2.9 Consensus size: 12
47430 ATATATGTTC
47440 ATGTGATATGAT
1 ATGTGATATGAT
47452 ATGTGATATGAT
1 ATGTGATATGAT
47464 ATGTGATATGA
1 ATGTGATATGA
47475 GAACATGATA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 23 1.00
ACGTcount: A:0.34, C:0.00, G:0.26, T:0.40
Consensus pattern (12 bp):
ATGTGATATGAT
Found at i:47532 original size:29 final size:29
Alignment explanation
Indices: 47490--47563 Score: 141
Period size: 29 Copynumber: 2.6 Consensus size: 29
47480 TGATATGAAG
47490 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
47519 TGACATGAGCTACATGATCACAAGAGAAA
1 TGACATGAGCTACATGATCACAAGAGAAA
47548 TGACATGAG-TACATGA
1 TGACATGAGCTACATGA
47564 ACATATGAAA
Statistics
Matches: 45, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
28 7 0.16
29 38 0.84
ACGTcount: A:0.43, C:0.16, G:0.22, T:0.19
Consensus pattern (29 bp):
TGACATGAGCTACATGATCACAAGAGAAA
Found at i:47666 original size:15 final size:15
Alignment explanation
Indices: 47648--47680 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
47638 GAGGGTATAA
47648 TAGTCCTTCGGGACG
1 TAGTCCTTCGGGACG
*
47663 TAGTCCTTCGGGATG
1 TAGTCCTTCGGGACG
47678 TAG
1 TAG
47681 GAGTCCTACG
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.15, C:0.21, G:0.33, T:0.30
Consensus pattern (15 bp):
TAGTCCTTCGGGACG
Found at i:51800 original size:22 final size:22
Alignment explanation
Indices: 51774--51850 Score: 145
Period size: 22 Copynumber: 3.5 Consensus size: 22
51764 ATCTACACTC
51774 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
51796 TTCAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
*
51818 TTTAAAGATGATAGATTCTCTT
1 TTCAAAGATGATAGATTCTCTT
51840 TTCAAAGATGA
1 TTCAAAGATGA
51851 AAGCTTTATT
Statistics
Matches: 53, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
22 53 1.00
ACGTcount: A:0.34, C:0.12, G:0.14, T:0.40
Consensus pattern (22 bp):
TTCAAAGATGATAGATTCTCTT
Found at i:53033 original size:113 final size:113
Alignment explanation
Indices: 52642--53306 Score: 878
Period size: 113 Copynumber: 5.9 Consensus size: 113
52632 TTTTTCTTAA
** *
52642 AACATTTCCAGA-AGGGTTCATAATGAGAAGAACTCATCTGAAGAAAGAAGAAGAAGTTCATAAT
1 AACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * * *
52706 GAGAAGAACTTGTTCAACTTTTTACTCGAATTCATCACTCGAGGGATC
66 GAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATC
* * *
52754 AACATTGCCAG-GTCGAA-TTCATAATAAGAAGAACTCATCTGAAGAAGG-AGAAGAAGTTCATA
1 AACATTTCCAGAG--AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATA
* * * * *
52816 ATAAAAATAACTTGTTTAACTTTTTGCTTGAATTCATCACTCGATGGATC
64 ATGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATC
*
52866 AACATTGCC-G-GAAGAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
1 AACATTTCCAGAGAA-AGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* * *
52929 TGAGAAGAGCTTGTTCAACCTTTTGCTTAAATCCATCACTCGATGGATC
65 TGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATC
* *
52978 AGCTTTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
1 AACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
* * * * ** *
53043 GAGAAGAATTTGTTCAACCTTTTGTTTAAATTAATCTTTTGATGGATC
66 GAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATC
* * * *
53091 AACATTTCCA-AGTAGAGTTCAAAATGAGAAGAACTCGTCTGAAGAAGGAAGAAGAAATTCATAA
1 AACATTTCCAGAG-AAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAA
* * *
53155 TGAGAAGAATTTGTTCAACTTTTTGTTTGAATTCATCACTCGATGGATC
65 TGAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATC
* * *
53204 AACTTTTCCAGAGAGAGTTCATAATGAGAAGAACTCATCTGAAAAAGGAAGAAGAAGTTCATAAT
1 AACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
*
53269 GAGAAGAACTTGTTCAACCTTTTGCATG-ATTCTATCAC
66 GAGAAGAACTTGTTCAACCTTTTGCTTGAATTC-ATCAC
53307 AGAAGGAGAT
Statistics
Matches: 487, Mismatches: 55, Indels: 21
0.87 0.10 0.04
Matches are distributed among these distances:
109 1 0.00
110 1 0.00
111 32 0.07
112 144 0.30
113 304 0.62
114 5 0.01
ACGTcount: A:0.38, C:0.15, G:0.19, T:0.28
Consensus pattern (113 bp):
AACATTTCCAGAGAAAGTTCATAATGAGAAGAACTCATCTGAAGAAGGAAGAAGAAGTTCATAAT
GAGAAGAACTTGTTCAACCTTTTGCTTGAATTCATCACTCGATGGATC
Found at i:53637 original size:18 final size:17
Alignment explanation
Indices: 53616--53661 Score: 56
Period size: 18 Copynumber: 2.6 Consensus size: 17
53606 TTTATTTCAT
53616 TTATTTTATTTATTATTA
1 TTATTTTATTTATTA-TA
*
53634 TTATTTTGTTTTATTATA
1 TTATTTT-ATTTATTATA
*
53652 TTATATTATT
1 TTATTTTATT
53662 AGTATTAAAT
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
17 2 0.08
18 15 0.62
19 7 0.29
ACGTcount: A:0.26, C:0.00, G:0.02, T:0.72
Consensus pattern (17 bp):
TTATTTTATTTATTATA
Found at i:55394 original size:115 final size:115
Alignment explanation
Indices: 55264--55471 Score: 308
Period size: 115 Copynumber: 1.8 Consensus size: 115
55254 TATGTTTTAG
** * *
55264 TTATTTATTTATTTTTAAATATTGAAGGAAAGAGCTGTCTTAAAACAACTAGAAGCCCTTTTCTA
1 TTATTTATTTATTTTTAAATATCAAAAGAAAGAGCTGTCTTAAAACAACTAAAAGCCCTTTTCTA
*
55329 ATATTTTTAAATAAATAAATATCTTATTATATTAAAATAATTTTTTATTA
66 ATATTTCTAAATAAATAAATATCTTATTATATTAAAATAATTTTTTATTA
** ** * *
55379 TTATTTATTTATTTTTTTATATCAAAAGAAAGAGCTGTCTTAAAGTACCTAAAAGCCCTTTTCTG
1 TTATTTATTTATTTTTAAATATCAAAAGAAAGAGCTGTCTTAAAACAACTAAAAGCCCTTTTCTA
*
55444 ATATTTCTAAATAAATAAATATGTTATT
66 ATATTTCTAAATAAATAAATATCTTATT
55472 TAAATATATA
Statistics
Matches: 81, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
115 81 1.00
ACGTcount: A:0.38, C:0.09, G:0.08, T:0.45
Consensus pattern (115 bp):
TTATTTATTTATTTTTAAATATCAAAAGAAAGAGCTGTCTTAAAACAACTAAAAGCCCTTTTCTA
ATATTTCTAAATAAATAAATATCTTATTATATTAAAATAATTTTTTATTA
Found at i:57754 original size:24 final size:24
Alignment explanation
Indices: 57727--57778 Score: 104
Period size: 24 Copynumber: 2.2 Consensus size: 24
57717 TGGCGAAGTT
57727 GTGGAGGAAGATTGTCATGAAGAG
1 GTGGAGGAAGATTGTCATGAAGAG
57751 GTGGAGGAAGATTGTCATGAAGAG
1 GTGGAGGAAGATTGTCATGAAGAG
57775 GTGG
1 GTGG
57779 CTCAGCCCCG
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 28 1.00
ACGTcount: A:0.31, C:0.04, G:0.44, T:0.21
Consensus pattern (24 bp):
GTGGAGGAAGATTGTCATGAAGAG
Found at i:60607 original size:14 final size:13
Alignment explanation
Indices: 60585--60654 Score: 59
Period size: 14 Copynumber: 5.2 Consensus size: 13
60575 CAAGGTAAAG
*
60585 AAAAAAATAAGAT
1 AAAAAAATAAAAT
60598 AAAAAGAATAAAAT
1 AAAAA-AATAAAAT
****
60612 AAAAGGGGAAAAT
1 AAAAAAATAAAAT
60625 AAAATAAATAAAAT
1 AAAA-AAATAAAAT
*
60639 AAAATAAATAAGAT
1 AAAA-AAATAAAAT
60653 AA
1 AA
60655 GGAAAAAAAT
Statistics
Matches: 45, Mismatches: 10, Indels: 3
0.78 0.17 0.05
Matches are distributed among these distances:
13 14 0.31
14 31 0.69
ACGTcount: A:0.74, C:0.00, G:0.10, T:0.16
Consensus pattern (13 bp):
AAAAAAATAAAAT
Found at i:60649 original size:9 final size:10
Alignment explanation
Indices: 60588--60646 Score: 50
Period size: 9 Copynumber: 5.8 Consensus size: 10
60578 GGTAAAGAAA
*
60588 AAAATAAGAT
1 AAAATAAAAT
*
60598 AAAA-AGAAT
1 AAAATAAAAT
*
60607 AAAATAAAAGGGG
1 AAAATAAAA---T
60620 AAAATAAAAT
1 AAAATAAAAT
60630 -AAATAAAAT
1 AAAATAAAAT
60639 AAAATAAA
1 AAAATAAA
60647 TAAGATAAGG
Statistics
Matches: 39, Mismatches: 5, Indels: 10
0.72 0.09 0.19
Matches are distributed among these distances:
9 16 0.41
10 14 0.36
13 9 0.23
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (10 bp):
AAAATAAAAT
Found at i:60655 original size:5 final size:5
Alignment explanation
Indices: 60588--60646 Score: 50
Period size: 5 Copynumber: 11.6 Consensus size: 5
60578 GGTAAAGAAA
* * *
60588 AAAAT AAGAT AAAA- AGAAT AAAAT AAAAGGGG AAAAT AAAAT -AAAT
1 AAAAT AAAAT AAAAT AAAAT AAAAT AAAA---T AAAAT AAAAT AAAAT
60634 AAAAT AAAAT AAA
1 AAAAT AAAAT AAA
60647 TAAGATAAGG
Statistics
Matches: 43, Mismatches: 6, Indels: 10
0.73 0.10 0.17
Matches are distributed among these distances:
4 7 0.16
5 32 0.74
8 4 0.09
ACGTcount: A:0.75, C:0.00, G:0.10, T:0.15
Consensus pattern (5 bp):
AAAAT
Found at i:61197 original size:2 final size:2
Alignment explanation
Indices: 61190--61226 Score: 74
Period size: 2 Copynumber: 18.5 Consensus size: 2
61180 TTAAAGAAAC
61190 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
61227 ATAATAATAA
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 35 1.00
ACGTcount: A:0.51, C:0.00, G:0.00, T:0.49
Consensus pattern (2 bp):
AT
Found at i:61306 original size:48 final size:52
Alignment explanation
Indices: 61212--61307 Score: 119
Period size: 52 Copynumber: 1.9 Consensus size: 52
61202 ATATATATAT
* * *
61212 ATATATATATATATAATAATAATAATAAATATAGTAAAAATGAAATAATTTA
1 ATATATATATACATAATAATAATAATAAACATAGTAAAAATAAAATAATTTA
* *
61264 ATATATATATACGT-ATAATAATAAT-AACAT-G-AATAATAAAATAA
1 ATATATATATACATAATAATAATAATAAACATAGTAAAAATAAAATAA
61308 ATGAATAAAA
Statistics
Matches: 39, Mismatches: 5, Indels: 4
0.81 0.10 0.08
Matches are distributed among these distances:
48 11 0.28
49 1 0.03
50 4 0.10
51 11 0.28
52 12 0.31
ACGTcount: A:0.59, C:0.02, G:0.04, T:0.34
Consensus pattern (52 bp):
ATATATATATACATAATAATAATAATAAACATAGTAAAAATAAAATAATTTA
Found at i:62795 original size:106 final size:106
Alignment explanation
Indices: 62610--63141 Score: 857
Period size: 106 Copynumber: 5.0 Consensus size: 106
62600 AGTATTGTTC
* * * * * *
62610 CGAGTCCAATATCCTCCGCCGTGAAGTTGAAATTGGTTCTGGAACTAGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
*
62675 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGGGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
**
62716 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGATTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
62781 ACCAACCGTCCCTTCGTTGTGAAGTTGAACTTGTGCTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
**
62822 CGAGTCCAATGCCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
62887 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
** *
62928 CGAGTCCAATGCCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGATA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
62993 ACTAGCCGTCCCTTCTTTGTGAAGTTGAACTTGTGTTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
* * *
63034 TGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGACTCTGAAATTGGGAAGTTGTTTGTTGACA
1 CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
* *
63099 ACCAGCCATCCCTTCGTTGTGAAGTTGAACTTGTATTGTCT
66 ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
63140 CG
1 CG
63142 GGTGTCGCGA
Statistics
Matches: 397, Mismatches: 29, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
106 397 1.00
ACGTcount: A:0.22, C:0.19, G:0.24, T:0.35
Consensus pattern (106 bp):
CGAGTCCAATATCCTTCGCTGTGAAGTTGAAATTGGCTCTGAAATTGGGAAATTGTTTGTTGACA
ACCAGCCGTCCCTTCGTTGTGAAGTTGAACTTGTGTTGTCT
Found at i:63710 original size:37 final size:37
Alignment explanation
Indices: 63628--63712 Score: 91
Period size: 37 Copynumber: 2.3 Consensus size: 37
63618 GTTTCATGGG
* * * * **
63628 AAACGGTCTCAAGGGAGACAAAATTTTGTTTTAAGAA
1 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
63665 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAA-AA
1 AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
*
63701 GAAATTGTCTCA
1 -AAACTGTCTCA
63713 TGGGGAGATG
Statistics
Matches: 40, Mismatches: 7, Indels: 2
0.82 0.14 0.04
Matches are distributed among these distances:
36 2 0.05
37 38 0.95
ACGTcount: A:0.42, C:0.15, G:0.18, T:0.25
Consensus pattern (37 bp):
AAACTGTCTCAAGAGAGACAAAACTTAGTTCCAAGAA
Found at i:64414 original size:18 final size:18
Alignment explanation
Indices: 64383--64418 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
64373 TGTTGAATCC
*
64383 CCAAAGATGCCCCAATAT
1 CCAAAAATGCCCCAATAT
*
64401 CCAAAAATGTCCCAATAT
1 CCAAAAATGCCCCAATAT
64419 TTGATGTTGA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.42, C:0.31, G:0.08, T:0.19
Consensus pattern (18 bp):
CCAAAAATGCCCCAATAT
Found at i:65500 original size:16 final size:15
Alignment explanation
Indices: 65481--65538 Score: 64
Period size: 16 Copynumber: 3.7 Consensus size: 15
65471 TTCCTTTTGA
65481 TTTTTGCTTCTTTTCT
1 TTTTTG-TTCTTTTCT
65497 TTTTTGTT-TTGTTCT
1 TTTTTGTTCTT-TTCT
*
65512 TTTTTGTTTCTCTTCT
1 TTTTTG-TTCTTTTCT
*
65528 TTTTTATTCTT
1 TTTTTGTTCTT
65539 GATTGAATCT
Statistics
Matches: 36, Mismatches: 3, Indels: 7
0.78 0.07 0.15
Matches are distributed among these distances:
14 2 0.06
15 16 0.44
16 17 0.47
17 1 0.03
ACGTcount: A:0.02, C:0.14, G:0.07, T:0.78
Consensus pattern (15 bp):
TTTTTGTTCTTTTCT
Found at i:65511 original size:15 final size:16
Alignment explanation
Indices: 65481--65532 Score: 70
Period size: 16 Copynumber: 3.3 Consensus size: 16
65471 TTCCTTTTGA
* *
65481 TTTTTGCTTCTTTTCT
1 TTTTTGTTTCTCTTCT
*
65497 TTTTTGTTT-TGTTCT
1 TTTTTGTTTCTCTTCT
65512 TTTTTGTTTCTCTTCT
1 TTTTTGTTTCTCTTCT
65528 TTTTT
1 TTTTT
65533 ATTCTTGATT
Statistics
Matches: 32, Mismatches: 3, Indels: 2
0.86 0.08 0.05
Matches are distributed among these distances:
15 14 0.44
16 18 0.56
ACGTcount: A:0.00, C:0.13, G:0.08, T:0.79
Consensus pattern (16 bp):
TTTTTGTTTCTCTTCT
Found at i:69011 original size:10 final size:10
Alignment explanation
Indices: 68996--69027 Score: 55
Period size: 10 Copynumber: 3.2 Consensus size: 10
68986 ACAATTAGTA
68996 AAATAGAAAT
1 AAATAGAAAT
69006 AAATAGAAAT
1 AAATAGAAAT
*
69016 AAATAAAAAT
1 AAATAGAAAT
69026 AA
1 AA
69028 TAATGGCAAG
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
10 21 1.00
ACGTcount: A:0.75, C:0.00, G:0.06, T:0.19
Consensus pattern (10 bp):
AAATAGAAAT
Found at i:70345 original size:24 final size:23
Alignment explanation
Indices: 70313--70373 Score: 74
Period size: 24 Copynumber: 2.7 Consensus size: 23
70303 ACACAAGGTT
70313 TAAAAAAATATATATAATAATGAA
1 TAAAAAAATATATATAATAAT-AA
*
70337 TAAAAAAAT-GA-A-AATAATAA
1 TAAAAAAATATATATAATAATAA
70357 TAAAAATAATATATATA
1 TAAAAA-AATATATATA
70374 TAAAGTTATA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
20 8 0.26
21 9 0.29
22 2 0.06
23 2 0.06
24 10 0.32
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.28
Consensus pattern (23 bp):
TAAAAAAATATATATAATAATAA
Found at i:70560 original size:12 final size:12
Alignment explanation
Indices: 70545--70659 Score: 54
Period size: 14 Copynumber: 8.9 Consensus size: 12
70535 TATTAAAGAA
70545 AATAATATAAAT
1 AATAATATAAAT
*
70557 AAT-ATAGTAAAA
1 AATAATA-TAAAT
* *
70569 AATGAAAATAATTT
1 AAT-AATATAA-AT
*
70583 AATATATATATAT
1 AATA-ATATAAAT
70596 ATATATATATATAAT
1 A-ATA-ATATA-AAT
* *
70611 AATAACATGAAT
1 AATAATATAAAT
*
70623 AATAAAAATAAAT
1 AAT-AATATAAAT
*
70636 AATAAATATCATAT
1 AAT-AATAT-AAAT
70650 AATAA-ATAAA
1 AATAATATAAA
70660 GGACTAATAT
Statistics
Matches: 79, Mismatches: 15, Indels: 19
0.70 0.13 0.17
Matches are distributed among these distances:
11 5 0.06
12 18 0.23
13 26 0.33
14 27 0.34
15 3 0.04
ACGTcount: A:0.63, C:0.02, G:0.03, T:0.33
Consensus pattern (12 bp):
AATAATATAAAT
Found at i:70589 original size:2 final size:2
Alignment explanation
Indices: 70584--70608 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
70574 AAATAATTTA
70584 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
70609 ATAATAACAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:72969 original size:485 final size:486
Alignment explanation
Indices: 71702--73153 Score: 2612
Period size: 485 Copynumber: 3.0 Consensus size: 486
71692 CTTCTGTATT
* *
71702 GGAGCTCTTCTTGCCTGCGGTTTTTACTGGTTCGTTTGCCTTTTAGGCCCGGCCAAGCAAAAGGG
1 GGAGCTCTTCTTGCCTGCGGTCTTTACTGGTTCGTTTGCCTTTTAGGCCCGACCAAGCAAAAGGG
*
71767 CAAGCATGCCGTTGATCTCTCCGGTGGTTCCATCTCCTCCGACAAAGTTCGGGACAACTACAAAC
66 CAAGCGTGCCGTTGATCTCTCCGGTGGTTCCATCTCCTCCGACAAAGTTCGGGACAACTACAAAC
71832 AGTATTGGTCTTTCTTCAGGCAACCAAAGGAGATCGAAACCGCCGAGAAGGTTCCAGACTTTGTC
131 AGTATTGGTCTTTCTTCAGGCAACCAAAGGAGATCGAAACCGCCGAGAAGGTTCCAGACTTTGTC
71897 GATACTTTCTACAACTTAGTCACCGATATTTACGAATGGGGGTGGGGCCAATCCTTCCACTTCTC
196 GATACTTTCTACAACTTAGTCACCGATATTTACGAATGGGGGTGGGGCCAATCCTTCCACTTCTC
* * *
71962 TCCTTCCATCTGCGGTAAATCTCACCGGGACGCGACGCGCCTCCACGAAGAGATGGCCGTTGATC
261 TCCTTCCATCCGCGGCAAATCTCACCGGGACGCGACGCGCCTCCACGAAGAGATGGTCGTTGATC
* * *
72027 TCATCGAAGTCAAACCGGGAGATCGAATCCTGGACTTCGGATGTGGCGTTGGCGGGCCTATGCGT
326 TCATCGAAGTCAAACCGGGAGACCGAATCCTGGACGTCGGATGTGGCGTTGGCGGGCCCATGCGT
72092 GCTATTGCGGCTCACTCGCGGGCCAACGTCGTTGGCATTACCATCAACGAGTACCAAGTCAACCG
391 GCTATTGCGGCTCACTCGCGGGCCAACGTCGTTGGCATTACCATCAACGAGTACCAAGTCAACCG
*
72157 TGCTCGCCTTCACAAATAGAAAGCCGGGCTA
456 TGCCCGCCTTCACAAATAGAAAGCCGGGCTA
*
72188 GGAGCTCTTCTTGCCTGCGGTCTTTACTGGTTTGTTTGCCTTTTAGGCCCGACCAAGCAAAAGGG
1 GGAGCTCTTCTTGCCTGCGGTCTTTACTGGTTCGTTTGCCTTTTAGGCCCGACCAAGCAAAAGGG
*
72253 CAAGCGTG-CGTTGATCTCTCCGGTGGTTCCATCT-CTCCGACAAAGTTCGAGACAACTACAAAC
66 CAAGCGTGCCGTTGATCTCTCCGGTGGTTCCATCTCCTCCGACAAAGTTCGGGACAACTACAAAC
* * *
72316 AATATTGG----TCTTCAGACAACCAAAGGAGATCGAAACCGCCGAGATGGTTCCAGACTTTGTC
131 AGTATTGGTCTTTCTTCAGGCAACCAAAGGAGATCGAAACCGCCGAGAAGGTTCCAGACTTTGTC
*
72377 GATACTTTCTACAACTTACTCACCGATATTTACGAATGGGGGTGGGGCCAATCCTTCCACTTCTC
196 GATACTTTCTACAACTTAGTCACCGATATTTACGAATGGGGGTGGGGCCAATCCTTCCACTTCTC
* *
72442 TCCTTCCATCCGCGGCAAATCTCACCGGGATGCGACGCGCCTCCACGAAGAGATAGTCGTTGATC
261 TCCTTCCATCCGCGGCAAATCTCACCGGGACGCGACGCGCCTCCACGAAGAGATGGTCGTTGATC
* *
72507 TCATCGAAGTCAAACCGGGAGACCGAATTCTGGACGTCGGATGTGGCGTTGGCGGGCCCATGCAT
326 TCATCGAAGTCAAACCGGGAGACCGAATCCTGGACGTCGGATGTGGCGTTGGCGGGCCCATGCGT
72572 GCTATTGCGGCTCACTCGC-GGCCAACGTCGTTGGCATTACCATCAACGAGTACCAAGTCAACCG
391 GCTATTGCGGCTCACTCGCGGGCCAACGTCGTTGGCATTACCATCAACGAGTACCAAGTCAACCG
*
72636 TGCCCGCCTTCACAAATAGAAAGCTGGGCTA
456 TGCCCGCCTTCACAAATAGAAAGCCGGGCTA
72667 GGAGCTCTTCTTGCCTGCGGTCTTTACTGGTTCGTTTGCCTTTTAGGCCCGACCAAGCAAAAGGG
1 GGAGCTCTTCTTGCCTGCGGTCTTTACTGGTTCGTTTGCCTTTTAGGCCCGACCAAGCAAAAGGG
*
72732 CAAGCGTGCCGTTGATCTCTCCGGTGGTTCCATCTCCTCCGATAAAGTTCGGGACAACTACAAAC
66 CAAGCGTGCCGTTGATCTCTCCGGTGGTTCCATCTCCTCCGACAAAGTTCGGGACAACTACAAAC
72797 AGTATTGGTCTTTCTTCAGGCAACCAAAGGAGATCGAAACCGCCGAGAAGGTTCCAGACTTTGTC
131 AGTATTGGTCTTTCTTCAGGCAACCAAAGGAGATCGAAACCGCCGAGAAGGTTCCAGACTTTGTC
*
72862 GATACTTTTTACAACTTAGTCACCGATATTTACGAATGGGGGTGGGGCCAATCCTTCCACTTCTC
196 GATACTTTCTACAACTTAGTCACCGATATTTACGAATGGGGGTGGGGCCAATCCTTCCACTTCTC
*
72927 TCCTTCCATCCGCGGCAAATCTCACCGGGACGCGATGCGCCTCCACGAAGAGATGGTCGTTGATC
261 TCCTTCCATCCGCGGCAAATCTCACCGGGACGCGACGCGCCTCCACGAAGAGATGGTCGTTGATC
* *
72992 TAATCGAAGTCAAACCGGGAGACCGAATCCTGGACGTCGGATGTGGCGTTGGTGGGCCCATGCGT
326 TCATCGAAGTCAAACCGGGAGACCGAATCCTGGACGTCGGATGTGGCGTTGGCGGGCCCATGCGT
*
73057 GCTATTGCGGCTCACTCGCGGGCCAACGTCATTGGCATTACCATCAACGAGTACCAAGTCAACCG
391 GCTATTGCGGCTCACTCGCGGGCCAACGTCGTTGGCATTACCATCAACGAGTACCAAGTCAACCG
73122 TGCCCGCCTTCACAAATAGAAAGCCGGGCTA
456 TGCCCGCCTTCACAAATAGAAAGCCGGGCTA
73153 G
1 G
73154 ATTCGCTCTA
Statistics
Matches: 921, Mismatches: 38, Indels: 14
0.95 0.04 0.01
Matches are distributed among these distances:
479 146 0.16
480 280 0.30
481 34 0.04
484 35 0.04
485 282 0.31
486 144 0.16
ACGTcount: A:0.23, C:0.28, G:0.25, T:0.24
Consensus pattern (486 bp):
GGAGCTCTTCTTGCCTGCGGTCTTTACTGGTTCGTTTGCCTTTTAGGCCCGACCAAGCAAAAGGG
CAAGCGTGCCGTTGATCTCTCCGGTGGTTCCATCTCCTCCGACAAAGTTCGGGACAACTACAAAC
AGTATTGGTCTTTCTTCAGGCAACCAAAGGAGATCGAAACCGCCGAGAAGGTTCCAGACTTTGTC
GATACTTTCTACAACTTAGTCACCGATATTTACGAATGGGGGTGGGGCCAATCCTTCCACTTCTC
TCCTTCCATCCGCGGCAAATCTCACCGGGACGCGACGCGCCTCCACGAAGAGATGGTCGTTGATC
TCATCGAAGTCAAACCGGGAGACCGAATCCTGGACGTCGGATGTGGCGTTGGCGGGCCCATGCGT
GCTATTGCGGCTCACTCGCGGGCCAACGTCGTTGGCATTACCATCAACGAGTACCAAGTCAACCG
TGCCCGCCTTCACAAATAGAAAGCCGGGCTA
Found at i:81235 original size:33 final size:32
Alignment explanation
Indices: 81183--81285 Score: 93
Period size: 32 Copynumber: 3.2 Consensus size: 32
81173 AATCCAAAAT
* * *
81183 CAACCAGAACTGAAATTAACCCGAATTGAAAG
1 CAACCCGAACCGAATTTAACCCGAATTGAAAG
81215 CAACCCGAACCGAATTTTAACCCG-ATTCGAAAG
1 CAACCCGAACCGAA-TTTAACCCGAATT-GAAAG
* * * * *
81248 TAACCTGAATCGAATTTAACCTGACA-CGAAAG
1 CAACCCGAACCGAATTTAACCCGA-ATTGAAAG
81280 CAACCC
1 CAACCC
81286 AAACAAATTG
Statistics
Matches: 57, Mismatches: 10, Indels: 8
0.76 0.13 0.11
Matches are distributed among these distances:
32 32 0.56
33 24 0.42
34 1 0.02
ACGTcount: A:0.41, C:0.27, G:0.15, T:0.17
Consensus pattern (32 bp):
CAACCCGAACCGAATTTAACCCGAATTGAAAG
Found at i:82541 original size:17 final size:18
Alignment explanation
Indices: 82504--82544 Score: 66
Period size: 18 Copynumber: 2.3 Consensus size: 18
82494 ATATTATGTA
*
82504 TTTAATTTATTTAAGTAT
1 TTTACTTTATTTAAGTAT
82522 TTTACTTTATTTAA-TAT
1 TTTACTTTATTTAAGTAT
82539 TTTACT
1 TTTACT
82545 AATATAATTC
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 9 0.41
18 13 0.59
ACGTcount: A:0.29, C:0.05, G:0.02, T:0.63
Consensus pattern (18 bp):
TTTACTTTATTTAAGTAT
Found at i:84862 original size:35 final size:33
Alignment explanation
Indices: 84823--84907 Score: 82
Period size: 35 Copynumber: 2.5 Consensus size: 33
84813 GTATTTCAGT
*
84823 TAATTTTGTT-TATTATCATTTAATATCAGTTATTG
1 TAATTTTGTTATATTACCATTTAATA-C--TTATTG
*
84858 TAATTTGGTTATCATTTACCATTTAATACTTATTG
1 TAATTTTGTTAT-A-TTACCATTTAATACTTATTG
* *
84893 TAAGTTTGTTGTATT
1 TAATTTTGTTATATT
84908 TAAAATTATA
Statistics
Matches: 42, Mismatches: 5, Indels: 8
0.76 0.09 0.15
Matches are distributed among these distances:
33 2 0.05
34 1 0.02
35 24 0.57
36 1 0.02
37 2 0.05
38 12 0.29
ACGTcount: A:0.27, C:0.07, G:0.11, T:0.55
Consensus pattern (33 bp):
TAATTTTGTTATATTACCATTTAATACTTATTG
Found at i:90975 original size:38 final size:38
Alignment explanation
Indices: 90933--91007 Score: 141
Period size: 38 Copynumber: 2.0 Consensus size: 38
90923 AAGCATTCAC
90933 ATCCGGATATTCATAATCAAAGTACAACAAATAATCTA
1 ATCCGGATATTCATAATCAAAGTACAACAAATAATCTA
*
90971 ATCCGGATATTCATAATCAAAGTACAGCAAATAATCT
1 ATCCGGATATTCATAATCAAAGTACAACAAATAATCT
91008 GAAGTGGAAG
Statistics
Matches: 36, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
38 36 1.00
ACGTcount: A:0.45, C:0.19, G:0.09, T:0.27
Consensus pattern (38 bp):
ATCCGGATATTCATAATCAAAGTACAACAAATAATCTA
Found at i:91151 original size:25 final size:25
Alignment explanation
Indices: 91123--91174 Score: 104
Period size: 25 Copynumber: 2.1 Consensus size: 25
91113 TCAAGATGAA
91123 ACAAAGCCACTGAGAGATCAATCCG
1 ACAAAGCCACTGAGAGATCAATCCG
91148 ACAAAGCCACTGAGAGATCAATCCG
1 ACAAAGCCACTGAGAGATCAATCCG
91173 AC
1 AC
91175 GGTGAAGAAG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
25 27 1.00
ACGTcount: A:0.40, C:0.29, G:0.19, T:0.12
Consensus pattern (25 bp):
ACAAAGCCACTGAGAGATCAATCCG
Found at i:92337 original size:6 final size:6
Alignment explanation
Indices: 92326--92630 Score: 610
Period size: 6 Copynumber: 50.8 Consensus size: 6
92316 AATATTTTTT
92326 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
92374 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
92422 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
92470 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
92518 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
92566 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
1 TATATC TATATC TATATC TATATC TATATC TATATC TATATC TATATC
92614 TATATC TATATC TATAT
1 TATATC TATATC TATAT
92631 ATATCTCATA
Statistics
Matches: 299, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 299 1.00
ACGTcount: A:0.33, C:0.16, G:0.00, T:0.50
Consensus pattern (6 bp):
TATATC
Found at i:96271 original size:31 final size:32
Alignment explanation
Indices: 96193--96276 Score: 93
Period size: 34 Copynumber: 2.6 Consensus size: 32
96183 GGTTTTTGGG
* *
96193 CCACCCGACCCGACCCGAGAAGAAATGGTTCT
1 CCACCCGACCCGACCCGACAAAAAATGGTTCT
96225 CCACCCGTGACCCGACCCGACAAAATTAAT-GTT-T
1 CCACCC--GACCCGACCCGACAAAA--AATGGTTCT
96259 -CACCCGACCCGACCCGAC
1 CCACCCGACCCGACCCGAC
96277 CCGAATATAT
Statistics
Matches: 46, Mismatches: 2, Indels: 9
0.81 0.04 0.16
Matches are distributed among these distances:
31 13 0.28
32 6 0.13
33 5 0.11
34 16 0.35
35 3 0.07
36 3 0.07
ACGTcount: A:0.27, C:0.42, G:0.18, T:0.13
Consensus pattern (32 bp):
CCACCCGACCCGACCCGACAAAAAATGGTTCT
Found at i:96306 original size:5 final size:5
Alignment explanation
Indices: 96296--96321 Score: 52
Period size: 5 Copynumber: 5.2 Consensus size: 5
96286 TGACTTAGAA
96296 ACCCG ACCCG ACCCG ACCCG ACCCG A
1 ACCCG ACCCG ACCCG ACCCG ACCCG A
96322 AATAATAATA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 21 1.00
ACGTcount: A:0.23, C:0.58, G:0.19, T:0.00
Consensus pattern (5 bp):
ACCCG
Found at i:96555 original size:43 final size:43
Alignment explanation
Indices: 96476--96566 Score: 123
Period size: 42 Copynumber: 2.1 Consensus size: 43
96466 TTTACCCTAA
96476 ACCCGACCCGACCCGACCCGAACAGTGTGCTTAAAAAAACCCG
1 ACCCGACCCGACCCGACCCGAACAGTGTGCTTAAAAAAACCCG
* ** *
96519 ACCCGACCCGACCCGAACCCGAA-A-TTTTTTTAAAAAAATCCG
1 ACCCGACCCGACCCG-ACCCGAACAGTGTGCTTAAAAAAACCCG
96561 ACCCGA
1 ACCCGA
96567 TCGGGTCGGG
Statistics
Matches: 43, Mismatches: 4, Indels: 3
0.86 0.08 0.06
Matches are distributed among these distances:
42 20 0.47
43 16 0.37
44 7 0.16
ACGTcount: A:0.34, C:0.37, G:0.15, T:0.13
Consensus pattern (43 bp):
ACCCGACCCGACCCGACCCGAACAGTGTGCTTAAAAAAACCCG
Found at i:97456 original size:45 final size:44
Alignment explanation
Indices: 97404--97644 Score: 263
Period size: 45 Copynumber: 5.4 Consensus size: 44
97394 AATACATCAT
* *
97404 TATGCATTTTAAACTCTAACATCTTTTCTGTTGATAATTCACCCA
1 TATGCA-TTTCAACTCTAGCATCTTTTCTGTTGATAATTCACCCA
* * *
97449 TATGCATTTCAACTATAGTATACTTTTATGTTGATAATGT-ACCCA
1 TATGCATTTCAACTCTAGCAT-CTTTTCTGTTGATAAT-TCACCCA
* * *
97494 TATACATCTCAAC-CATAGTATACTTTTCTGTTGATAATGT-ACCCA
1 TATGCATTTCAACTC-TAGCAT-CTTTTCTGTTGATAAT-TCACCCA
* * *
97539 TATACATTTCAACTCTAGCAAACTTTTCTGTTGATAATGCACCCA
1 TATGCATTTCAACTCTAGC-ATCTTTTCTGTTGATAATTCACCCA
* * *
97584 TATGCATTTCAACTCTAGTATATTATTCTGTTGATAATGCACCCA
1 TATGCATTTCAACTCTAGCATCTT-TTCTGTTGATAATTCACCCA
97629 TATGCATTTCAACTCT
1 TATGCATTTCAACTCT
97645 GACATCCTTT
Statistics
Matches: 172, Mismatches: 17, Indels: 14
0.85 0.08 0.07
Matches are distributed among these distances:
44 14 0.08
45 155 0.90
46 3 0.02
ACGTcount: A:0.30, C:0.21, G:0.09, T:0.40
Consensus pattern (44 bp):
TATGCATTTCAACTCTAGCATCTTTTCTGTTGATAATTCACCCA
Found at i:97643 original size:90 final size:90
Alignment explanation
Indices: 97426--97644 Score: 316
Period size: 90 Copynumber: 2.4 Consensus size: 90
97416 ACTCTAACAT
* * * * *
97426 CTTTTCTGTTGATAATTCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCAAACTTTTATGTTGATAATGCAC
97491 CCATATACATCTCAACCATAGTATA
66 CCATATACATCTCAACCATAGTATA
* * *
97516 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTCTAGCAAACTTTTCTGTTGATAATGCAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCAAACTTTTATGTTGATAATGCAC
* *
97581 CCATATGCATTTCAACTC-TAGTATA
66 CCATATACATCTCAAC-CATAGTATA
97606 -TTATTCTGTTGATAATGCACCCATATGCATTTCAACTCT
1 CTT-TTCTGTTGATAATGCACCCATATGCATTTCAACTCT
97645 GACATCCTTT
Statistics
Matches: 115, Mismatches: 12, Indels: 4
0.88 0.09 0.03
Matches are distributed among these distances:
89 2 0.02
90 112 0.97
91 1 0.01
ACGTcount: A:0.29, C:0.21, G:0.10, T:0.40
Consensus pattern (90 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCAAACTTTTATGTTGATAATGCAC
CCATATACATCTCAACCATAGTATA
Found at i:97666 original size:45 final size:45
Alignment explanation
Indices: 97437--97681 Score: 135
Period size: 45 Copynumber: 5.4 Consensus size: 45
97427 TTTTCTGTTG
* * * * ***
97437 ATAATTCACCCATATGCATTTCAACTATAGTATACTT-TTATGTTG
1 ATAATGCACCCATATGCATTTCAACTCTAGTACA-TTATTCTGCCA
* * * * ***
97482 ATAATGTACCCATATACATCTCAAC-CATAGTATACTT-TTCTGTTG
1 ATAATGCACCCATATGCATTTCAACTC-TAGTACA-TTATTCTGCCA
* * * * ***
97527 ATAATGTACCCATATACATTTCAACTCTAGCAAACTT-TTCTGTTG
1 ATAATGCACCCATATGCATTTCAACTCTAGTACA-TTATTCTGCCA
* ***
97572 ATAATGCACCCATATGCATTTCAACTCTAGTATATTATTCTGTTG
1 ATAATGCACCCATATGCATTTCAACTCTAGTACATTATTCTGCCA
97617 ATAATGCACCCATATGCATTTCAACTCT-G-ACATCCT-TTCATGCCA
1 ATAATGCACCCATATGCATTTCAACTCTAGTACAT--TATTC-TGCCA
* *
97662 ATAATGCACCTATATACATT
1 ATAATGCACCCATATGCATT
97682 ATTTTGTTAT
Statistics
Matches: 175, Mismatches: 19, Indels: 12
0.85 0.09 0.06
Matches are distributed among these distances:
43 3 0.02
44 6 0.03
45 165 0.94
46 1 0.01
ACGTcount: A:0.31, C:0.22, G:0.09, T:0.38
Consensus pattern (45 bp):
ATAATGCACCCATATGCATTTCAACTCTAGTACATTATTCTGCCA
Found at i:97666 original size:90 final size:90
Alignment explanation
Indices: 97426--97681 Score: 304
Period size: 90 Copynumber: 2.8 Consensus size: 90
97416 ACTCTAACAT
* * * * * *
97426 CTTTTCTGTTGATAATTCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATCCTTTCATGTTGATAATGCAC
*
97491 CCATATACATCTCAACCATAGTATA
66 CCATATACATTTCAACCATAGTATA
* * * *
97516 CTTTTCTGTTGATAATGTACCCATATACATTTCAACTCTAGCAAACTTTTC-TGTTGATAATGCA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGC-ATCCTTTCATGTTGATAATGCA
*
97580 CCCATATGCATTTCAACTC-TAGTATA
65 CCCATATACATTTCAAC-CATAGTATA
***
97606 -TTATTCTGTTGATAATGCACCCATATGCATTTCAACTCT-GACATCCTTTCATGCCAATAATGC
1 CTT-TTCTGTTGATAATGCACCCATATGCATTTCAACTCTAG-CATCCTTTCATGTTGATAATGC
*
97669 ACCTATATACATT
64 ACCCATATACATT
97682 ATTTTGTTAT
Statistics
Matches: 140, Mismatches: 21, Indels: 10
0.82 0.12 0.06
Matches are distributed among these distances:
89 9 0.06
90 126 0.90
91 5 0.04
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (90 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGCATCCTTTCATGTTGATAATGCAC
CCATATACATTTCAACCATAGTATA
Found at i:97666 original size:135 final size:135
Alignment explanation
Indices: 97426--97681 Score: 331
Period size: 135 Copynumber: 1.9 Consensus size: 135
97416 ACTCTAACAT
* *
97426 CTTTTCTGTTGATAATTCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGTAC
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCAC
* * *** *
97491 CCATATACATCTCAACCATAGTATACTTTTCTGTTGATAATGTACCCATATACATTTCAACTCTA
66 CCATATACATCTCAACCATAGCATACCTTTCTGCCAATAATGCACCCATATACATTTCAACTCTA
97556 GCAAA
131 GCAAA
* *
97561 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTCTAGTATA-TTATTCTGTTGATAATGCA
1 CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTT-TTATGTTGATAATGCA
* * *
97625 CCCATATGCATTTCAACTC-T-GACAT-CCTTTCATGCCAATAATGCACCTATATACATT
65 CCCATATACATCTCAAC-CATAG-CATACCTTTC-TGCCAATAATGCACCCATATACATT
97682 ATTTTGTTAT
Statistics
Matches: 104, Mismatches: 13, Indels: 8
0.83 0.10 0.06
Matches are distributed among these distances:
134 8 0.08
135 95 0.91
136 1 0.01
ACGTcount: A:0.30, C:0.22, G:0.09, T:0.39
Consensus pattern (135 bp):
CTTTTCTGTTGATAATGCACCCATATGCATTTCAACTATAGTATACTTTTATGTTGATAATGCAC
CCATATACATCTCAACCATAGCATACCTTTCTGCCAATAATGCACCCATATACATTTCAACTCTA
GCAAA
Found at i:98182 original size:22 final size:21
Alignment explanation
Indices: 98132--98190 Score: 66
Period size: 21 Copynumber: 2.7 Consensus size: 21
98122 CTGGCCCTCT
*
98132 GGTATCGATACCCCTACTTAT
1 GGTATCGATACCCCTACTTAG
*
98153 AGTATCGATACTACCCTA-TTAG
1 GGTATCGATAC--CCCTACTTAG
98175 GGTATCGATATCCCCT
1 GGTATCGATA-CCCCT
98191 TCATGTATTG
Statistics
Matches: 32, Mismatches: 3, Indels: 6
0.78 0.07 0.15
Matches are distributed among these distances:
21 14 0.44
22 12 0.38
23 6 0.19
ACGTcount: A:0.25, C:0.27, G:0.15, T:0.32
Consensus pattern (21 bp):
GGTATCGATACCCCTACTTAG
Found at i:101363 original size:17 final size:17
Alignment explanation
Indices: 101338--101371 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
101328 AATGAGATAA
*
101338 AAATTAAATAAACAAAT
1 AAATAAAATAAACAAAT
*
101355 AAATAAAATAAATAAAT
1 AAATAAAATAAACAAAT
101372 TGAGATAAAG
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.74, C:0.03, G:0.00, T:0.24
Consensus pattern (17 bp):
AAATAAAATAAACAAAT
Found at i:107125 original size:35 final size:35
Alignment explanation
Indices: 107064--107131 Score: 84
Period size: 35 Copynumber: 1.9 Consensus size: 35
107054 GTTTCAAAGA
** *
107064 TGGTATCGATACTATCTTTATGGTATCGGTACCCT
1 TGGTATCGATACTATCTACATGGTATCGATACCCT
*
107099 TGGTATCGATATTATTCTACAT-GTATCGATACC
1 TGGTATCGATACTA-TCTACATGGTATCGATACC
107132 TCATGAATGT
Statistics
Matches: 28, Mismatches: 4, Indels: 2
0.82 0.12 0.06
Matches are distributed among these distances:
35 23 0.82
36 5 0.18
ACGTcount: A:0.24, C:0.19, G:0.18, T:0.40
Consensus pattern (35 bp):
TGGTATCGATACTATCTACATGGTATCGATACCCT
Found at i:108319 original size:18 final size:18
Alignment explanation
Indices: 108296--108331 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
108286 ACATAAGTCA
*
108296 TATATATTCTTTCATACT
1 TATATACTCTTTCATACT
*
108314 TATATACTCTTTTATACT
1 TATATACTCTTTCATACT
108332 CATCTCTGAT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.28, C:0.17, G:0.00, T:0.56
Consensus pattern (18 bp):
TATATACTCTTTCATACT
Found at i:113761 original size:5 final size:5
Alignment explanation
Indices: 113742--113807 Score: 98
Period size: 5 Copynumber: 13.0 Consensus size: 5
113732 AAGTTTGTTA
113742 AAAAT AAAAT GAAAAT AAAAT AAAAT AAAATT AAAAT AAAAT AAAAT -AAAT
1 AAAAT AAAAT -AAAAT AAAAT AAAAT AAAA-T AAAAT AAAAT AAAAT AAAAT
*
113793 AAAAT AAAAC AAAAT
1 AAAAT AAAAT AAAAT
113808 GAGTTGCCTC
Statistics
Matches: 56, Mismatches: 2, Indels: 6
0.88 0.03 0.09
Matches are distributed among these distances:
4 4 0.07
5 42 0.75
6 10 0.18
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (5 bp):
AAAAT
Found at i:113766 original size:21 final size:20
Alignment explanation
Indices: 113742--113807 Score: 98
Period size: 21 Copynumber: 3.2 Consensus size: 20
113732 AAGTTTGTTA
113742 AAAATAAAATGAAAATAAAAT
1 AAAATAAAAT-AAAATAAAAT
113763 AAAATAAAATTAAAATAAAAT
1 AAAATAAAA-TAAAATAAAAT
*
113784 AAAAT-AAATAAAATAAAAC
1 AAAATAAAATAAAATAAAAT
113803 AAAAT
1 AAAAT
113808 GAGTTGCCTC
Statistics
Matches: 43, Mismatches: 1, Indels: 4
0.90 0.02 0.08
Matches are distributed among these distances:
19 15 0.35
20 3 0.07
21 24 0.56
22 1 0.02
ACGTcount: A:0.77, C:0.02, G:0.02, T:0.20
Consensus pattern (20 bp):
AAAATAAAATAAAATAAAAT
Found at i:115946 original size:20 final size:22
Alignment explanation
Indices: 115901--115958 Score: 75
Period size: 20 Copynumber: 2.6 Consensus size: 22
115891 ACATGGGTAG
115901 TGCATCGATGCACATGTTAAAGAA
1 TGCATCGATGCAC-TGTT-AAGAA
115925 TGCATCGATGCACTG-T-AGAA
1 TGCATCGATGCACTGTTAAGAA
*
115945 TGTATCGATGCACT
1 TGCATCGATGCACT
115959 TCAAGGGAAA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
20 17 0.52
22 1 0.03
23 2 0.06
24 13 0.39
ACGTcount: A:0.31, C:0.19, G:0.22, T:0.28
Consensus pattern (22 bp):
TGCATCGATGCACTGTTAAGAA
Found at i:116305 original size:23 final size:24
Alignment explanation
Indices: 116265--116317 Score: 63
Period size: 23 Copynumber: 2.2 Consensus size: 24
116255 CATATGCTTG
* *
116265 ATATGTTACATATGTGTTAATGAT
1 ATATGTGACATATATGTTAATGAT
*
116289 ATATGTGA-ATATATGTTTATGAT
1 ATATGTGACATATATGTTAATGAT
*
116312 ACATGT
1 ATATGT
116318 TCAGCGTCCA
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
23 18 0.72
24 7 0.28
ACGTcount: A:0.34, C:0.04, G:0.17, T:0.45
Consensus pattern (24 bp):
ATATGTGACATATATGTTAATGAT
Found at i:120691 original size:13 final size:13
Alignment explanation
Indices: 120673--120713 Score: 50
Period size: 13 Copynumber: 3.2 Consensus size: 13
120663 TTGATATGTT
120673 ATATGTGTTAATG
1 ATATGTGTTAATG
*
120686 ATATGTGTGAAT-
1 ATATGTGTTAATG
120698 ATATGT-TTATATG
1 ATATGTGTTA-ATG
120711 ATA
1 ATA
120714 CATGTTCAGC
Statistics
Matches: 24, Mismatches: 2, Indels: 4
0.80 0.07 0.13
Matches are distributed among these distances:
11 2 0.08
12 8 0.33
13 14 0.58
ACGTcount: A:0.34, C:0.00, G:0.20, T:0.46
Consensus pattern (13 bp):
ATATGTGTTAATG
Done.