Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr13 ID=Chr13-JGI_221_v2.0
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: 58321163
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 747533 characters in sequence are not A, C, G, or T
File 87 of 199
Found at i:26588748 original size:20 final size:20
Alignment explanation
Indices: 26588719--26588757 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
26588709 CAACAATCAC
26588719 AAAAACATAAAAATTACAAA
1 AAAAACATAAAAATTACAAA
*
26588739 AAAAATATAAAAATTACAA
1 AAAAACATAAAAATTACAA
26588758 GAAGCAATTA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.74, C:0.08, G:0.00, T:0.18
Consensus pattern (20 bp):
AAAAACATAAAAATTACAAA
Found at i:26601367 original size:43 final size:42
Alignment explanation
Indices: 26601305--26601429 Score: 146
Period size: 43 Copynumber: 2.9 Consensus size: 42
26601295 GATTTCTGAG
26601305 ATGTGTTATCGTGTAAGACCACGTCTGGGACGTTGGCATCGACT
1 ATGTGTTA-CGTGTAAGACCACGTCTGGGACGTTGGCATCGA-T
**
26601349 -TGTGTTTACGTGTAAGACCTTGTCTGGGACAG-TGGCATCGAT
1 ATGTG-TTACGTGTAAGACCACGTCTGGGAC-GTTGGCATCGAT
* * *
26601391 ACGTGATTACATGTAAGACCACGTATGGGACGTTGGCAT
1 ATGTG-TTACGTGTAAGACCACGTCTGGGACGTTGGCAT
26601430 TGTAAGAGTT
Statistics
Matches: 69, Mismatches: 8, Indels: 9
0.80 0.09 0.10
Matches are distributed among these distances:
42 2 0.03
43 63 0.91
44 4 0.06
ACGTcount: A:0.22, C:0.18, G:0.30, T:0.30
Consensus pattern (42 bp):
ATGTGTTACGTGTAAGACCACGTCTGGGACGTTGGCATCGAT
Found at i:26602303 original size:24 final size:23
Alignment explanation
Indices: 26602272--26602344 Score: 83
Period size: 23 Copynumber: 3.1 Consensus size: 23
26602262 ATGAGTTGAA
* *
26602272 CCAATTTGTTACATATATGTTGT
1 CCAATTTGTTGCATATATGCTGT
* * * *
26602295 CCAATTTTGATGCTTAAATGCTGC
1 CCAA-TTTGTTGCATATATGCTGT
26602319 CCAATTTGTTGCATATATGCTGT
1 CCAATTTGTTGCATATATGCTGT
26602342 CCA
1 CCA
26602345 GTTTTGGTGT
Statistics
Matches: 39, Mismatches: 10, Indels: 2
0.76 0.20 0.04
Matches are distributed among these distances:
23 22 0.56
24 17 0.44
ACGTcount: A:0.25, C:0.19, G:0.15, T:0.41
Consensus pattern (23 bp):
CCAATTTGTTGCATATATGCTGT
Found at i:26602394 original size:23 final size:23
Alignment explanation
Indices: 26602368--26602417 Score: 64
Period size: 23 Copynumber: 2.2 Consensus size: 23
26602358 AAATGTTGCT
*
26602368 CAAACTGTTGTATATATGCTGCC
1 CAAACTGATGTATATATGCTGCC
* * *
26602391 CAAATTGATGTATTTATGCTGTC
1 CAAACTGATGTATATATGCTGCC
26602414 CAAA
1 CAAA
26602418 TTTTGGTGTG
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
23 23 1.00
ACGTcount: A:0.30, C:0.18, G:0.16, T:0.36
Consensus pattern (23 bp):
CAAACTGATGTATATATGCTGCC
Found at i:26602418 original size:23 final size:23
Alignment explanation
Indices: 26602376--26602419 Score: 70
Period size: 23 Copynumber: 1.9 Consensus size: 23
26602366 CTCAAACTGT
26602376 TGTATATATGCTGCCCAAATTGA
1 TGTATATATGCTGCCCAAATTGA
* *
26602399 TGTATTTATGCTGTCCAAATT
1 TGTATATATGCTGCCCAAATT
26602420 TTGGTGTGAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.27, C:0.16, G:0.16, T:0.41
Consensus pattern (23 bp):
TGTATATATGCTGCCCAAATTGA
Found at i:26602458 original size:71 final size:74
Alignment explanation
Indices: 26602309--26602489 Score: 187
Period size: 71 Copynumber: 2.5 Consensus size: 74
26602299 TTTTGATGCT
* * * * **
26602309 TAAATGCTGCCCAATTTGTTGCATATATGCTGTCC-AGTTTTGGTGTAAGAAATGTTGCTCAAAC
1 TAAATGCTGCCCAAATTGATGTATATATGCTGTCCAAATTTTGGTGTAAGAAATGCCGCTCAAAC
26602373 TGTTGTATA
66 TGTTGTATA
* * *
26602382 T--ATGCTGCCCAAATTGATGTATTTATGCTGTCCAAATTTTGGTGTGA-AAATGCCG-TCTAA-
1 TAAATGCTGCCCAAATTGATGTATATATGCTGTCCAAATTTTGGTGTAAGAAATGCCGCTCAAAC
26602442 T-TTGGTATA
66 TGTT-GTATA
** * *
26602451 TAAATGCTGTTCAAATTGATGTATAAAAGCTGTCCAAAT
1 TAAATGCTGCCCAAATTGATGTATATATGCTGTCCAAAT
26602490 AGGGTAGATT
Statistics
Matches: 90, Mismatches: 14, Indels: 10
0.79 0.12 0.09
Matches are distributed among these distances:
68 2 0.02
69 7 0.08
70 4 0.04
71 65 0.72
72 11 0.12
73 1 0.01
ACGTcount: A:0.29, C:0.14, G:0.19, T:0.38
Consensus pattern (74 bp):
TAAATGCTGCCCAAATTGATGTATATATGCTGTCCAAATTTTGGTGTAAGAAATGCCGCTCAAAC
TGTTGTATA
Found at i:26609210 original size:43 final size:43
Alignment explanation
Indices: 26609161--26609285 Score: 132
Period size: 43 Copynumber: 2.9 Consensus size: 43
26609151 GATTTCTGAG
26609161 ATGTGTTATCATGTAAGACCACGTCTGGGACATTGGCATCGACT
1 ATGTGTTATCATGTAAGACCACGTCTGGGACATTGGCATCGA-T
* * *
26609205 -TGTGTT-TACGTGTAAGACC-CTGTCTGAGACAGTGGCATCGAT
1 ATGTGTTAT-CATGTAAGACCAC-GTCTGGGACATTGGCATCGAT
* * *
26609247 ACGTGATTA-CATGTAAGACCACGTTTGGGACGTTGGCAT
1 ATGTG-TTATCATGTAAGACCACGTCTGGGACATTGGCAT
26609286 TTTAAGAGTT
Statistics
Matches: 66, Mismatches: 9, Indels: 13
0.75 0.10 0.15
Matches are distributed among these distances:
42 3 0.05
43 60 0.91
44 3 0.05
ACGTcount: A:0.24, C:0.19, G:0.27, T:0.30
Consensus pattern (43 bp):
ATGTGTTATCATGTAAGACCACGTCTGGGACATTGGCATCGAT
Found at i:26610154 original size:23 final size:23
Alignment explanation
Indices: 26610127--26610197 Score: 88
Period size: 23 Copynumber: 3.0 Consensus size: 23
26610117 ATGAGTTGAA
*
26610127 CCAATTTGTTACATATATGCTGT
1 CCAATTTGTTGCATATATGCTGT
* * * *
26610150 CCAATTTTGATGCTTACATGCTGC
1 CCAA-TTTGTTGCATATATGCTGT
26610174 CCAATTTGTTGCATATATGCTGT
1 CCAATTTGTTGCATATATGCTGT
26610197 C
1 C
26610198 GAGTTTTGGT
Statistics
Matches: 38, Mismatches: 9, Indels: 2
0.78 0.18 0.04
Matches are distributed among these distances:
23 20 0.53
24 18 0.47
ACGTcount: A:0.23, C:0.21, G:0.15, T:0.41
Consensus pattern (23 bp):
CCAATTTGTTGCATATATGCTGT
Found at i:26610271 original size:23 final size:23
Alignment explanation
Indices: 26610231--26610274 Score: 61
Period size: 23 Copynumber: 1.9 Consensus size: 23
26610221 CTCAAACTGT
26610231 TGTATATATGCTACCCAAATTGA
1 TGTATATATGCTACCCAAATTGA
* **
26610254 TGTATTTATGCTGTCCAAATT
1 TGTATATATGCTACCCAAATT
26610275 TTGGTGTGAA
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 18 1.00
ACGTcount: A:0.30, C:0.16, G:0.14, T:0.41
Consensus pattern (23 bp):
TGTATATATGCTACCCAAATTGA
Found at i:26620930 original size:50 final size:50
Alignment explanation
Indices: 26620804--26621045 Score: 247
Period size: 50 Copynumber: 4.9 Consensus size: 50
26620794 GATAATAACA
* * ** * *
26620804 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGTATGT-TTCCTGTAC--
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT-ATAT-CGG
* * * ** *
26620853 TGCCAATGCCATATCCCAGATATGGTCTTACATGGGAGTTCTTATATTGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCGG
* * * * * *
26620903 TGCCCATGCCATGTCCCGGACATGGTCTTACAGGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCGG
* * * *
26620953 TGCCAACGCTATGTCCCATACATGGTCTTACATGGGACCTCTTATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCGG
26621003 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTT
26621046 TACCCAACAT
Statistics
Matches: 161, Mismatches: 29, Indels: 5
0.83 0.15 0.03
Matches are distributed among these distances:
49 36 0.22
50 125 0.78
ACGTcount: A:0.21, C:0.29, G:0.21, T:0.29
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTTATATCGG
Found at i:26631167 original size:70 final size:70
Alignment explanation
Indices: 26631059--26631200 Score: 162
Period size: 72 Copynumber: 2.0 Consensus size: 70
26631049 TATATACACC
* * * * *
26631059 TCAAATACATATATATACTTATTAAATGCATTTGCCGAAT-ATATATATATATATATATATATCA
1 TCAAATACATATATATA-TTAATAAATGCATATACCGAATCACATATATATAGATATATA-AT-A
26631123 ATTGCTTA
63 ATTGCTTA
* * *
26631131 TCAAATGCATATATAT-TTAATATATGCATATACCGAATGCACATATATATAGATATTTAATAAT
1 TCAAATACATATATATATTAATAAATGCATATACCGAAT-CACATATATATAGATATATAATAAT
26631195 TGCTTA
65 TGCTTA
26631201 GACCGAATAT
Statistics
Matches: 60, Mismatches: 8, Indels: 6
0.81 0.11 0.08
Matches are distributed among these distances:
70 27 0.45
71 2 0.03
72 31 0.52
ACGTcount: A:0.42, C:0.11, G:0.07, T:0.40
Consensus pattern (70 bp):
TCAAATACATATATATATTAATAAATGCATATACCGAATCACATATATATAGATATATAATAATT
GCTTA
Found at i:26631385 original size:41 final size:42
Alignment explanation
Indices: 26631340--26631423 Score: 125
Period size: 41 Copynumber: 2.0 Consensus size: 42
26631330 ACCGGCTTTT
* *
26631340 AGCCTGCTAGACGTATAGTCTGAATAATTTCACCGGC-ATAA
1 AGCCTGCTAGACATAAAGTCTGAATAATTTCACCGGCAATAA
* *
26631381 AGCCTGCTAGACATAAAGTCTGAATTATTTCACTGGCAATAA
1 AGCCTGCTAGACATAAAGTCTGAATAATTTCACCGGCAATAA
26631423 A
1 A
26631424 TCAGATTAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
41 33 0.87
42 5 0.13
ACGTcount: A:0.35, C:0.20, G:0.18, T:0.27
Consensus pattern (42 bp):
AGCCTGCTAGACATAAAGTCTGAATAATTTCACCGGCAATAA
Found at i:26633135 original size:25 final size:25
Alignment explanation
Indices: 26633090--26633138 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
26633080 TATTTGTTTA
*
26633090 ATTATAATATTATAATATAATATAT
1 ATTATAACATTATAATATAATATAT
26633115 ATTATAACATTTATAAT-TAATATA
1 ATTATAACA-TTATAATATAATATA
26633139 AAAACTATAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 15 0.68
26 7 0.32
ACGTcount: A:0.51, C:0.02, G:0.00, T:0.47
Consensus pattern (25 bp):
ATTATAACATTATAATATAATATAT
Found at i:26640622 original size:42 final size:42
Alignment explanation
Indices: 26640565--26640645 Score: 103
Period size: 42 Copynumber: 1.9 Consensus size: 42
26640555 GCACAATCAC
*
26640565 TTAAGCTCACATGGGGAGCTTT-GCTGA-TACACAGCTTGTCAG
1 TTAAGCTCACATGGGGAG-TTTCGCT-ATTACACAACTTGTCAG
**
26640607 TTAAGCTCATGTGGGGAGTTTCGCTATTACACAACTTGT
1 TTAAGCTCACATGGGGAGTTTCGCTATTACACAACTTGT
26640646 AAAATCGTTT
Statistics
Matches: 34, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
41 4 0.12
42 30 0.88
ACGTcount: A:0.23, C:0.20, G:0.25, T:0.32
Consensus pattern (42 bp):
TTAAGCTCACATGGGGAGTTTCGCTATTACACAACTTGTCAG
Found at i:26648053 original size:23 final size:21
Alignment explanation
Indices: 26648011--26648051 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 21
26648001 AAAGAAAGAA
26648011 AAGAAAATAAATAAATAAATC
1 AAGAAAATAAATAAATAAATC
26648032 AAGAGAAATAAA-ATAATAAA
1 AAGA-AAATAAATA-AATAAA
26648052 ATAAATATCA
Statistics
Matches: 18, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
21 5 0.28
22 13 0.72
ACGTcount: A:0.73, C:0.02, G:0.07, T:0.17
Consensus pattern (21 bp):
AAGAAAATAAATAAATAAATC
Found at i:26651655 original size:99 final size:99
Alignment explanation
Indices: 26651483--26651676 Score: 309
Period size: 99 Copynumber: 2.0 Consensus size: 99
26651473 TCAAGCAGGT
*
26651483 AATCAATACAAATTGGAATGAAATGAGCTGACTTAGTCAGTCAGTTAACAATAACCCAGATCGAG
1 AATCAATACAAATTGGAATGAAATGAGCTGACTTAGTCAGTCAGTCAACAATAACCCAGATCGAG
* *
26651548 TCTTTCTTTCTCAGTGTCATTGGAAGTCCCTAGA
66 TCTATCTTTATCAGTGTCATTGGAAGTCCCTAGA
* * * *
26651582 AATCAGTACAAATTGGAATGAAATGAGTTGACTTAGTTAGT-AGGTCAATAATAACCCAGATCGA
1 AATCAATACAAATTGGAATGAAATGAGCTGACTTAGTCAGTCA-GTCAACAATAACCCAGATCGA
26651646 GTCTATCTTTATCAGTGTCATTGGAAGTCCC
65 GTCTATCTTTATCAGTGTCATTGGAAGTCCC
26651677 ATTACAACAT
Statistics
Matches: 87, Mismatches: 7, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
98 1 0.01
99 86 0.99
ACGTcount: A:0.34, C:0.18, G:0.19, T:0.30
Consensus pattern (99 bp):
AATCAATACAAATTGGAATGAAATGAGCTGACTTAGTCAGTCAGTCAACAATAACCCAGATCGAG
TCTATCTTTATCAGTGTCATTGGAAGTCCCTAGA
Found at i:26653094 original size:17 final size:19
Alignment explanation
Indices: 26653072--26653106 Score: 56
Period size: 19 Copynumber: 1.9 Consensus size: 19
26653062 GTTCTGAATG
26653072 CAATC-TTCA-TCACATCA
1 CAATCTTTCACTCACATCA
26653089 CAATCTTTCACTCACATC
1 CAATCTTTCACTCACATC
26653107 TGATAATATC
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
18 4 0.25
19 7 0.44
ACGTcount: A:0.31, C:0.37, G:0.00, T:0.31
Consensus pattern (19 bp):
CAATCTTTCACTCACATCA
Found at i:26658429 original size:37 final size:36
Alignment explanation
Indices: 26658378--26658503 Score: 101
Period size: 37 Copynumber: 3.4 Consensus size: 36
26658368 TCACTCAGTC
26658378 TAACAGT-AGAATTTGATCAATTAAACATCATTCATTA
1 TAACAGTAAG-ATTTGATCAATTAAAC-TCATTCATTA
* * * *
26658415 TAACAGTAAGATTTGTTCAGTTAAGCTCCATTCAATA
1 TAACAGTAAGATTTGATCAATTAAACT-CATTCATTA
* * * * * *
26658452 TAACGGTATGATTTGGTCGATTGAGATTCATTCATTA
1 TAACAGTAAGATTTGATCAATT-AAACTCATTCATTA
* *
26658489 TAACGGTATGATTTG
1 TAACAGTAAGATTTG
26658504 GCTCGATAAA
Statistics
Matches: 73, Mismatches: 13, Indels: 6
0.79 0.14 0.07
Matches are distributed among these distances:
36 1 0.01
37 68 0.93
38 4 0.05
ACGTcount: A:0.34, C:0.13, G:0.16, T:0.37
Consensus pattern (36 bp):
TAACAGTAAGATTTGATCAATTAAACTCATTCATTA
Found at i:26658504 original size:37 final size:37
Alignment explanation
Indices: 26658405--26658510 Score: 124
Period size: 37 Copynumber: 2.8 Consensus size: 37
26658395 CAATTAAACA
* * * *
26658405 TCATTCATTATAACAGTAAGATTTGTTC-AGTTAAGCT
1 TCATTCATTATAACGGTATGATTTGGTCGA-TTAAGAT
* * *
26658442 CCATTCAATATAACGGTATGATTTGGTCGATTGAGAT
1 TCATTCATTATAACGGTATGATTTGGTCGATTAAGAT
26658479 TCATTCATTATAACGGTATGATTTGGCTCGAT
1 TCATTCATTATAACGGTATGATTTGG-TCGAT
26658511 AAAGCGTACT
Statistics
Matches: 58, Mismatches: 9, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
37 52 0.90
38 6 0.10
ACGTcount: A:0.29, C:0.14, G:0.18, T:0.39
Consensus pattern (37 bp):
TCATTCATTATAACGGTATGATTTGGTCGATTAAGAT
Found at i:26676221 original size:25 final size:25
Alignment explanation
Indices: 26676163--26676221 Score: 59
Period size: 25 Copynumber: 2.4 Consensus size: 25
26676153 CCTAAATTTC
*
26676163 AATTTAATTATCTAATTTTTCAATT
1 AATTAAATTATCTAATTTTTCAATT
* *
26676188 TATTGAATTAT-TAATATTTT-ATATT
1 AATTAAATTATCTAAT-TTTTCA-ATT
26676213 AATTAAATT
1 AATTAAATT
26676222 TTTGAGAAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
24 5 0.18
25 23 0.82
ACGTcount: A:0.39, C:0.03, G:0.02, T:0.56
Consensus pattern (25 bp):
AATTAAATTATCTAATTTTTCAATT
Found at i:26679995 original size:30 final size:30
Alignment explanation
Indices: 26679959--26680018 Score: 120
Period size: 30 Copynumber: 2.0 Consensus size: 30
26679949 CAAAAGAATG
26679959 TCATAAAGCAGAATTAGAACATCTATGCCA
1 TCATAAAGCAGAATTAGAACATCTATGCCA
26679989 TCATAAAGCAGAATTAGAACATCTATGCCA
1 TCATAAAGCAGAATTAGAACATCTATGCCA
26680019 ATGTCATGCA
Statistics
Matches: 30, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 30 1.00
ACGTcount: A:0.43, C:0.20, G:0.13, T:0.23
Consensus pattern (30 bp):
TCATAAAGCAGAATTAGAACATCTATGCCA
Found at i:26694592 original size:50 final size:50
Alignment explanation
Indices: 26694485--26694730 Score: 201
Period size: 50 Copynumber: 4.8 Consensus size: 50
26694475 ATTTGGGTAA
* *
26694485 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCATTGAGATTATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA-C--CGAG---ATG
* *
26694541 AGAGGTCCCATGTAAGACCATGTCTGAGAAATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * * * *
26694591 AGAGGTCCCCCGTAAGACCATGTCTCGGACATGACATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*** * * * * *
26694641 AGAACCCCCATGTAAGACCATATATGGGATATGGCATTGGCA--GTACAAG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCG-AGATG
* ** * *
26694690 AAACATCCCATATAAGACCATGT-TGGGACATGGCTTTGGCA
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
26694731 TGTTATTATC
Statistics
Matches: 156, Mismatches: 33, Indels: 10
0.78 0.17 0.05
Matches are distributed among these distances:
48 17 0.11
49 20 0.13
50 76 0.49
53 3 0.02
55 1 0.01
56 39 0.25
ACGTcount: A:0.30, C:0.22, G:0.26, T:0.22
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:26705923 original size:20 final size:20
Alignment explanation
Indices: 26705880--26705931 Score: 70
Period size: 20 Copynumber: 2.6 Consensus size: 20
26705870 CTACGGTGCC
* *
26705880 CCTATAATGCACTCTGATGC
1 CCTATTATGCACTCTGATGA
*
26705900 CCTATTATGCACTCTGGTGA
1 CCTATTATGCACTCTGATGA
26705920 CCTATT-TGCACT
1 CCTATTATGCACT
26705932 TCGATGCTCT
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
19 6 0.21
20 23 0.79
ACGTcount: A:0.21, C:0.29, G:0.15, T:0.35
Consensus pattern (20 bp):
CCTATTATGCACTCTGATGA
Found at i:26711921 original size:21 final size:20
Alignment explanation
Indices: 26711897--26711945 Score: 71
Period size: 21 Copynumber: 2.4 Consensus size: 20
26711887 ATTTTTATAA
*
26711897 TTTAAAAAATAACAGTATATT
1 TTTAAAAAATAA-AATATATT
26711918 TTTAAAAAATAAAATATATT
1 TTTAAAAAATAAAATATATT
26711938 TTATAAAA
1 TT-TAAAA
26711946 TTTTATGTTT
Statistics
Matches: 26, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
20 9 0.35
21 17 0.65
ACGTcount: A:0.57, C:0.02, G:0.02, T:0.39
Consensus pattern (20 bp):
TTTAAAAAATAAAATATATT
Found at i:26712190 original size:18 final size:19
Alignment explanation
Indices: 26712148--26712190 Score: 54
Period size: 18 Copynumber: 2.4 Consensus size: 19
26712138 AATAAAAAAT
*
26712148 GTTTTAAAAATAAATTTCA
1 GTTTTTAAAATAAATTTCA
*
26712167 G-ATTTAAAATAAATTT-A
1 GTTTTTAAAATAAATTTCA
26712184 GTTTTTA
1 GTTTTTA
26712191 TTACTTAATT
Statistics
Matches: 20, Mismatches: 3, Indels: 3
0.77 0.12 0.12
Matches are distributed among these distances:
17 2 0.10
18 17 0.85
19 1 0.05
ACGTcount: A:0.44, C:0.02, G:0.07, T:0.47
Consensus pattern (19 bp):
GTTTTTAAAATAAATTTCA
Found at i:26712400 original size:19 final size:21
Alignment explanation
Indices: 26712373--26712423 Score: 65
Period size: 19 Copynumber: 2.6 Consensus size: 21
26712363 GACATTGATT
*
26712373 TATTTTAAAAATAA-TTTT-A
1 TATTATAAAAATAATTTTTGA
26712392 TATTAT--AAATAATTTTTGA
1 TATTATAAAAATAATTTTTGA
26712411 TATTATAAAAATA
1 TATTATAAAAATA
26712424 TAAAATTATT
Statistics
Matches: 27, Mismatches: 1, Indels: 6
0.79 0.03 0.18
Matches are distributed among these distances:
17 6 0.22
18 4 0.15
19 12 0.44
21 5 0.19
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (21 bp):
TATTATAAAAATAATTTTTGA
Found at i:26712401 original size:17 final size:18
Alignment explanation
Indices: 26712371--26712419 Score: 64
Period size: 17 Copynumber: 2.7 Consensus size: 18
26712361 AAGACATTGA
* *
26712371 TTTATTTTAAAAATAA-T
1 TTTATATTATAAATAATT
26712388 TTTATATTATAAATAATT
1 TTTATATTATAAATAATT
26712406 TTTGATATTATAAA
1 TTT-ATATTATAAA
26712420 AATATAAAAT
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
17 14 0.50
18 4 0.14
19 10 0.36
ACGTcount: A:0.45, C:0.00, G:0.02, T:0.53
Consensus pattern (18 bp):
TTTATATTATAAATAATT
Found at i:26713065 original size:49 final size:49
Alignment explanation
Indices: 26712988--26713082 Score: 145
Period size: 49 Copynumber: 1.9 Consensus size: 49
26712978 TGTCTCATGT
26712988 TACAGTATAGCTACAGTATCTAACCTCACTCCCATCGTTGGTTTTATAC
1 TACAGTATAGCTACAGTATCTAACCTCACTCCCATCGTTGGTTTTATAC
* * * * *
26713037 TACAGTATAGTTACAGTATTTAATCTCACTTCCATCGTTGTTTTTA
1 TACAGTATAGCTACAGTATCTAACCTCACTCCCATCGTTGGTTTTA
26713083 CGCTAACCGC
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
49 41 1.00
ACGTcount: A:0.26, C:0.22, G:0.12, T:0.40
Consensus pattern (49 bp):
TACAGTATAGCTACAGTATCTAACCTCACTCCCATCGTTGGTTTTATAC
Found at i:26720285 original size:5 final size:5
Alignment explanation
Indices: 26720261--26720295 Score: 52
Period size: 5 Copynumber: 6.6 Consensus size: 5
26720251 TGTTTAAGTA
26720261 ATATT ATATAT ATATAT ATATT ATATT ATATT ATA
1 ATATT ATAT-T ATAT-T ATATT ATATT ATATT ATA
26720296 ATAAAACAAA
Statistics
Matches: 29, Mismatches: 0, Indels: 2
0.94 0.00 0.06
Matches are distributed among these distances:
5 18 0.62
6 11 0.38
ACGTcount: A:0.46, C:0.00, G:0.00, T:0.54
Consensus pattern (5 bp):
ATATT
Found at i:26721073 original size:41 final size:39
Alignment explanation
Indices: 26721026--26721137 Score: 102
Period size: 37 Copynumber: 2.8 Consensus size: 39
26721016 TTTGCAATCG
*
26721026 AGTCGATGAGACACTGGGTGTCAAATTACTACTTCAGATTA
1 AGTCGATGAGACACTAGGTGTCAAATTA-TACTTC-GATTA
* * * * * * *
26721067 ATTCGATAAGGCACTAGGTG-CCAATT-TATTTCGGTTT
1 AGTCGATGAGACACTAGGTGTCAAATTATACTTCGATTA
*
26721104 AGCCGATGAGACACTAGGTGTCAAATTATTACTT
1 AGTCGATGAGACACTAGGTGTCAAATTA-TACTT
26721138 TGAATTTTTC
Statistics
Matches: 54, Mismatches: 14, Indels: 7
0.72 0.19 0.09
Matches are distributed among these distances:
37 19 0.35
38 10 0.19
40 9 0.17
41 16 0.30
ACGTcount: A:0.29, C:0.17, G:0.21, T:0.32
Consensus pattern (39 bp):
AGTCGATGAGACACTAGGTGTCAAATTATACTTCGATTA
Found at i:26727209 original size:5 final size:5
Alignment explanation
Indices: 26727201--26727274 Score: 148
Period size: 5 Copynumber: 14.8 Consensus size: 5
26727191 ATTAATATTA
26727201 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
1 TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT TATAT
26727251 TATAT TATAT TATAT TATAT TATA
1 TATAT TATAT TATAT TATAT TATA
26727275 ATAAAACAAA
Statistics
Matches: 69, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 69 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
TATAT
Found at i:26728962 original size:19 final size:18
Alignment explanation
Indices: 26728927--26728977 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
26728917 AAATGCAATC
* *
26728927 AAAT-ATAATAATGATAA
1 AAATAATAATAGTAATAA
*
26728944 CAATAATAAATAGTAATAA
1 AAATAAT-AATAGTAATAA
26728963 AAATAATAATAGTAA
1 AAATAATAATAGTAA
26728978 ATTAATTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 3 0.11
18 10 0.36
19 15 0.54
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
AAATAATAATAGTAATAA
Found at i:26728968 original size:25 final size:24
Alignment explanation
Indices: 26728927--26728983 Score: 62
Period size: 25 Copynumber: 2.4 Consensus size: 24
26728917 AAATGCAATC
**
26728927 AAATATAATAATGATAACAATAAT
1 AAATATAATAAAAATAACAATAAT
* *
26728951 AAATAGTAATAAAAATAATAATAGT
1 AAATA-TAATAAAAATAACAATAAT
26728976 AAAT-TAAT
1 AAATATAAT
26728984 TAATAGCAAA
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
23 4 0.14
24 5 0.18
25 19 0.68
ACGTcount: A:0.63, C:0.02, G:0.05, T:0.30
Consensus pattern (24 bp):
AAATATAATAAAAATAACAATAAT
Found at i:26730463 original size:50 final size:50
Alignment explanation
Indices: 26730387--26730669 Score: 196
Period size: 50 Copynumber: 5.6 Consensus size: 50
26730377 GTGATGTCGG
*
26730387 GGAAGCAAGATTCG-TCGTTGTGGCTTTAATCTGTTCCACTGCACAGCCTA
1 GGAAGCAAGATTCGCT-GTTGTAGCTTTAATCTGTTCCACTGCACAGCCTA
* * ** * ***
26730437 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTG-AAATATTA
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCACAGCCTA
* * * * ** * *
26730486 GGGAAGCAAGATTCACCGATGTGGCTTTAATCTACTCCACTGCACCGCCTT
1 -GGAAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCACAGCCTA
* * * ** * * **
26730537 GGGAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACA-ATGTCGG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCACA-GCCTA
* * * * *
26730587 GGAAGCAAGATTCACCGATGTGGCTTTAATCTTGTTCCACTGCACCA-CCTG
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATC-TGTTCCACTGCA-CAGCCTA
* *
26730638 GGGAGTAAGATTCGCTGTTGTAGCTTTAATCT
1 GGAAGCAAGATTCGCTGTTGTAGCTTTAATCT
26730670 TTTTAACTAC
Statistics
Matches: 169, Mismatches: 57, Indels: 14
0.70 0.24 0.06
Matches are distributed among these distances:
49 4 0.02
50 126 0.75
51 38 0.22
53 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.23, T:0.33
Consensus pattern (50 bp):
GGAAGCAAGATTCGCTGTTGTAGCTTTAATCTGTTCCACTGCACAGCCTA
Found at i:26730671 original size:101 final size:100
Alignment explanation
Indices: 26730380--26730750 Score: 523
Period size: 100 Copynumber: 3.7 Consensus size: 100
26730370 CTTAACTGTG
** * *
26730380 ATGTCGGGGAAGCAAGATTCGTCGTTGTGGCTTTAATCTGTTCCACTGCA-CAGCCTAGGAAGTA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCA-CCTAGGGAGTA
*
26730444 AGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGA-A
65 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACT-ACA
* ** ** * *
26730480 ATATTAGGGAAGCAAGATTCACCGATGTGGCTTTAATCTACTCCACTGCACCGCCTTGGGAGTAA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCACCTAGGGAGTAA
26730545 GATTCGCTGTTGTAGCTTTAATCTTTTTAACTACA
66 GATTCGCTGTTGTAGCTTTAATCTTTTTAACTACA
*
26730580 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTTGTTCCACTGCACCACCTGGGGAGTA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATC-TGTTCCACTGCACCACCTAGGGAGTA
26730645 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACA
65 AGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACA
* * *
26730681 ATGTCGGGGAAGCAAGATTCATCGATGTCGCTTTAATCTTGTTCCACTGCACC-GCTAGGGAAGA
1 ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATC-TGTTCCACTGCACCACCTAGGG-AG-
26730745 TAAGAT
63 TAAGAT
26730751 ATGTAATTCT
Statistics
Matches: 243, Mismatches: 23, Indels: 8
0.89 0.08 0.03
Matches are distributed among these distances:
99 1 0.00
100 124 0.51
101 112 0.46
102 6 0.02
ACGTcount: A:0.25, C:0.20, G:0.23, T:0.32
Consensus pattern (100 bp):
ATGTCGGGGAAGCAAGATTCACCGATGTGGCTTTAATCTGTTCCACTGCACCACCTAGGGAGTAA
GATTCGCTGTTGTAGCTTTAATCTTTTTAACTACA
Found at i:26730714 original size:50 final size:50
Alignment explanation
Indices: 26730437--26730720 Score: 189
Period size: 50 Copynumber: 5.7 Consensus size: 50
26730427 GCACAGCCTA
* * * * * * **
26730437 GGAAGTAAGATTCGCTGTTGTAGCTTTAATCTTTTGAACTGA-AATATTAG
1 GGAAGCAAGATTCACCGATGTAGCTTTAATCTTTTTAACT-ACAATGTCGG
* ** ** * ** * *
26730487 GGAAGCAAGATTCACCGATGTGGCTTTAATCTACTCCACTGCACCGCCTTG
1 GGAAGCAAGATTCACCGATGTAGCTTTAATCTTTTTAACTACAATGTC-GG
* * * *
26730538 GG-AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACAATGTCGG
1 GGAAGCAAGATTCACCGATGTAGCTTTAATCTTTTTAACTACAATGTCGG
* ** * **
26730587 GGAAGCAAGATTCACCGATGTGGCTTTAATCTTGTTCCACTGCACCACCT-GG
1 GGAAGCAAGATTCACCGATGTAGCTTTAATCTT-TTTAACT--ACAATGTCGG
* * * *
26730639 GG-AGTAAGATTCGCTGTTGTAGCTTTAATCTTTTTAACTACAATGTCGG
1 GGAAGCAAGATTCACCGATGTAGCTTTAATCTTTTTAACTACAATGTCGG
* *
26730688 GGAAGCAAGATTCATCGATGTCGCTTTAATCTT
1 GGAAGCAAGATTCACCGATGTAGCTTTAATCTT
26730721 GTTCCACTGC
Statistics
Matches: 170, Mismatches: 56, Indels: 16
0.70 0.23 0.07
Matches are distributed among these distances:
48 4 0.02
49 7 0.04
50 118 0.69
51 33 0.19
52 4 0.02
53 4 0.02
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (50 bp):
GGAAGCAAGATTCACCGATGTAGCTTTAATCTTTTTAACTACAATGTCGG
Found at i:26730901 original size:44 final size:44
Alignment explanation
Indices: 26730848--26731396 Score: 169
Period size: 44 Copynumber: 11.8 Consensus size: 44
26730838 CCTTTATTTT
* *
26730848 AATCCGCTCCACTGTAATCTCAGGGAAATAGGATTACTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCTTC
* * *
26730892 AATCTGCTCCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCTTC
* * * *** *
26730936 AATCTGATGCAATCTACTCTACTGTAACTTCTTA--GAGATAAGATCT-TTTATTTT
1 AATC---TG----CT-C-C-ACTGTAA--TCTCAGGGAAATAAGAT-TACTGGCTTC
* * * * **
26730990 TATCTGCTTCACTGTAATCTCAGGGAGATAGGATTACAAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCTTC
* * * **
26731034 AATCTGCTCCCCTGTAATCTCATGGAGATAAGATTTTTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCTTC
** * *** *
26731078 AATCTGATGCGATCTACTCTACTGTAA-CTTCATAGAGATAAGATT-CTTTATTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAAATAAGATTAC-TGGCTTC
* * * * *
26731132 AATCTACTCCACTATAATCTCAGGGAGATAGGATTACTAGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCTTC
* * * * *
26731176 AATTTGCTTCGCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCTTC
* * * *** *
26731220 AATCTAATGCGATCTACTCTACTGTAA-CTTCAGAGAGATAAGA-TCCTTTATTTT
1 AATC---T--G--CT-C-C-ACTGTAATC-TCAGGGAAATAAGATTAC-TGGCTTC
* * * ** *
26731274 AATCTACTCCACTGTAATCTCAGGGAGATAGGATTACAAGTTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCTTC
* * *
26731318 AATCTGCTCCTCTGTAATCTCAGGGAGATAAGATTTCTGGCTTC
1 AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCTTC
* * *
26731362 AATCTGCTCCGCTATAA-CATCAGGGAGATAAGATT
1 AATCTGCTCCACTGTAATC-TCAGGGAAATAAGATT
26731397 TACCATTTCT
Statistics
Matches: 379, Mismatches: 81, Indels: 90
0.69 0.15 0.16
Matches are distributed among these distances:
42 4 0.01
43 2 0.01
44 251 0.66
45 8 0.02
46 2 0.01
47 10 0.03
49 2 0.01
51 10 0.03
52 2 0.01
53 7 0.02
54 76 0.20
55 1 0.00
56 4 0.01
ACGTcount: A:0.28, C:0.20, G:0.18, T:0.34
Consensus pattern (44 bp):
AATCTGCTCCACTGTAATCTCAGGGAAATAAGATTACTGGCTTC
Found at i:26731053 original size:142 final size:142
Alignment explanation
Indices: 26730797--26731367 Score: 917
Period size: 142 Copynumber: 4.0 Consensus size: 142
26730787 GAGATAAGAC
* **
26730797 CTGATGCGATCTACTCCACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCCGCTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTACTCCACTG
* **
26730862 TAATCTCAGGGAAATAGGATTACTGGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACAAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
26730927 TCTGGCTTCAAT
131 TCTGGCTTCAAT
* ** * * * *
26730939 CTGATGCAATCTACTCTACTGTAACTTCTTAGAGATAAGATCTTTTATTTTTATCTGCTTCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTACTCCACTG
* *
26731004 TAATCTCAGGGAGATAGGATTACAAGCTTCAATCTGCTCCCCTGTAATCTCATGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACAAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
*
26731069 TTTGGCTTCAAT
131 TCTGGCTTCAAT
* * *
26731081 CTGATGCGATCTACTCTACTGTAACTTCATAGAGATAAGATTCTTTATTTTAATCTACTCCACTA
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTACTCCACTG
* * *
26731146 TAATCTCAGGGAGATAGGATTACTAGCTTCAATTTGCTTCGCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACAAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
26731211 TCTGGCTTCAAT
131 TCTGGCTTCAAT
*
26731223 CTAATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTACTCCACTG
1 CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTACTCCACTG
* *
26731288 TAATCTCAGGGAGATAGGATTACAAGTTTCAATCTGCTCCTCTGTAATCTCAGGGAGATAAGATT
66 TAATCTCAGGGAGATAGGATTACAAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
26731353 TCTGGCTTCAAT
131 TCTGGCTTCAAT
26731365 CTG
1 CTG
26731368 CTCCGCTATA
Statistics
Matches: 391, Mismatches: 38, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
142 391 1.00
ACGTcount: A:0.27, C:0.20, G:0.17, T:0.35
Consensus pattern (142 bp):
CTGATGCGATCTACTCTACTGTAACTTCAGAGAGATAAGATCCTTTATTTTAATCTACTCCACTG
TAATCTCAGGGAGATAGGATTACAAGCTTCAATCTGCTCCGCTGTAATCTCAGGGAGATAAGATT
TCTGGCTTCAAT
Found at i:26732818 original size:15 final size:15
Alignment explanation
Indices: 26732779--26732819 Score: 50
Period size: 13 Copynumber: 2.9 Consensus size: 15
26732769 CCATTTTTAC
* *
26732779 TTTTTCATTTTTTCC
1 TTTTTCATCTTTTCA
26732794 TTTTTC--CTTTTCA
1 TTTTTCATCTTTTCA
26732807 TTTTTCATCTTTT
1 TTTTTCATCTTTT
26732820 TTTTTTGCAA
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
13 11 0.50
15 11 0.50
ACGTcount: A:0.07, C:0.20, G:0.00, T:0.73
Consensus pattern (15 bp):
TTTTTCATCTTTTCA
Found at i:26732819 original size:21 final size:21
Alignment explanation
Indices: 26732770--26732819 Score: 57
Period size: 21 Copynumber: 2.3 Consensus size: 21
26732760 TTAGCCTCTC
*
26732770 CATTTTTACTTTTTCATTTTTT
1 CATTTTT-CCTTTTCATTTTTT
*
26732792 CCTTTTTCCTTTTCA-TTTTT
1 CATTTTTCCTTTTCATTTTTT
26732812 CATCTTTT
1 CAT-TTTT
26732820 TTTTTTGCAA
Statistics
Matches: 24, Mismatches: 3, Indels: 3
0.80 0.10 0.10
Matches are distributed among these distances:
20 7 0.29
21 11 0.46
22 6 0.25
ACGTcount: A:0.10, C:0.20, G:0.00, T:0.70
Consensus pattern (21 bp):
CATTTTTCCTTTTCATTTTTT
Found at i:26737130 original size:19 final size:18
Alignment explanation
Indices: 26737095--26737145 Score: 59
Period size: 19 Copynumber: 2.8 Consensus size: 18
26737085 AAATGTAATC
* *
26737095 AAAT-ATAATAATGATAA
1 AAATAATAATAGTAATAA
*
26737112 CAATAATAAATAGTAATAA
1 AAATAAT-AATAGTAATAA
26737131 AAATAATAATAGTAA
1 AAATAATAATAGTAA
26737146 ATTAATTAAT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
17 3 0.11
18 10 0.36
19 15 0.54
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
AAATAATAATAGTAATAA
Found at i:26737136 original size:25 final size:24
Alignment explanation
Indices: 26737090--26737151 Score: 63
Period size: 25 Copynumber: 2.5 Consensus size: 24
26737080 AATAGAAATG
**
26737090 TAATCAAATATAATAATGATAACAA
1 TAAT-AAATATAATAAAAATAACAA
*
26737115 TAATAAATAGTAATAAAAATAATAA
1 TAATAAATA-TAATAAAAATAACAA
*
26737140 TAGTAAAT-TAAT
1 TAATAAATATAAT
26737152 TAATAGCAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 4
0.80 0.10 0.10
Matches are distributed among these distances:
23 4 0.12
24 5 0.16
25 23 0.72
ACGTcount: A:0.61, C:0.03, G:0.05, T:0.31
Consensus pattern (24 bp):
TAATAAATATAATAAAAATAACAA
Found at i:26739206 original size:40 final size:39
Alignment explanation
Indices: 26739083--26739219 Score: 116
Period size: 40 Copynumber: 3.5 Consensus size: 39
26739073 CGACTTCGAG
* * *
26739083 TCGATGAGATACTGGGTGCCAATCTACTACTTCGAATTAAT
1 TCGATGAGACACTGGGTGCAAAT-TATTACTTCGAATT-AT
* * * ** *
26739124 TCGGTGAGGCACTGGGTGCCAA-T-TTACTTCGGTTTAG
1 TCGATGAGACACTGGGTGCAAATTATTACTTCGAATTAT
* *
26739161 CCGATGAGACACTGGGTGTCAAATTATTACTTTGAATTAT
1 TCGATGAGACACTGGGTG-CAAATTATTACTTCGAATTAT
* *
26739201 TCGATGAGGCACTAGGTGC
1 TCGATGAGACACTGGGTGC
26739220 CAAACTAGTG
Statistics
Matches: 75, Mismatches: 18, Indels: 8
0.74 0.18 0.08
Matches are distributed among these distances:
37 16 0.21
38 12 0.16
39 3 0.04
40 25 0.33
41 19 0.25
ACGTcount: A:0.25, C:0.18, G:0.26, T:0.31
Consensus pattern (39 bp):
TCGATGAGACACTGGGTGCAAATTATTACTTCGAATTAT
Found at i:26740787 original size:19 final size:19
Alignment explanation
Indices: 26740763--26740803 Score: 82
Period size: 19 Copynumber: 2.2 Consensus size: 19
26740753 AAGACTTGGT
26740763 ACCTAAGTGTGTCATATAC
1 ACCTAAGTGTGTCATATAC
26740782 ACCTAAGTGTGTCATATAC
1 ACCTAAGTGTGTCATATAC
26740801 ACC
1 ACC
26740804 ACCTCTCTTT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.32, C:0.24, G:0.15, T:0.29
Consensus pattern (19 bp):
ACCTAAGTGTGTCATATAC
Found at i:26743049 original size:26 final size:25
Alignment explanation
Indices: 26743000--26743076 Score: 100
Period size: 26 Copynumber: 3.0 Consensus size: 25
26742990 TTTCTCACCC
26743000 CAATTTTACCCTAGTAAAATTTTGA
1 CAATTTTACCCTAGTAAAATTTTGA
* *
26743025 CAATTTTACCCATTGTAAATTTTTGA
1 CAATTTTACCC-TAGTAAAATTTTGA
* *
26743051 CGATTTTAACCCTGGTAAAATTTTGA
1 CAATTTT-ACCCTAGTAAAATTTTGA
26743077 GAAAATTCAT
Statistics
Matches: 45, Mismatches: 5, Indels: 3
0.85 0.09 0.06
Matches are distributed among these distances:
25 11 0.24
26 30 0.67
27 4 0.09
ACGTcount: A:0.32, C:0.16, G:0.10, T:0.42
Consensus pattern (25 bp):
CAATTTTACCCTAGTAAAATTTTGA
Found at i:26743238 original size:12 final size:12
Alignment explanation
Indices: 26743221--26743249 Score: 58
Period size: 12 Copynumber: 2.4 Consensus size: 12
26743211 TGCAAGTTTC
26743221 CATTTCCATTTT
1 CATTTCCATTTT
26743233 CATTTCCATTTT
1 CATTTCCATTTT
26743245 CATTT
1 CATTT
26743250 TTCGAAACCT
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.17, C:0.24, G:0.00, T:0.59
Consensus pattern (12 bp):
CATTTCCATTTT
Found at i:26749300 original size:51 final size:48
Alignment explanation
Indices: 26749182--26749305 Score: 140
Period size: 51 Copynumber: 2.5 Consensus size: 48
26749172 GAGAAGGGAG
* *
26749182 CAAGGTGAAAACCCGCAAAGGGTGCTTTGAGTCCTAAAATAAAGAGAC
1 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAAGAGAC
* ** * * * *
26749230 TAAGGCAAAAACTCACAAAGGGCGCTTTGATTCCTAACAAAAAAAAGAGGC
1 CAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCT---AAAAAAAAGAGAC
26749281 CAAGGTGAAAACCCGCAAAGGGCGC
1 CAAGGTGAAAACCCGCAAAGGGCGC
26749306 CTAGAGACCA
Statistics
Matches: 59, Mismatches: 14, Indels: 3
0.78 0.18 0.04
Matches are distributed among these distances:
48 28 0.47
51 31 0.53
ACGTcount: A:0.41, C:0.21, G:0.24, T:0.14
Consensus pattern (48 bp):
CAAGGTGAAAACCCGCAAAGGGCGCTTTGAGTCCTAAAAAAAAGAGAC
Found at i:26750556 original size:51 final size:51
Alignment explanation
Indices: 26750487--26750889 Score: 545
Period size: 51 Copynumber: 7.9 Consensus size: 51
26750477 AAGTCAATAT
* *
26750487 AGCGAATCTTATTTCCCTGGTGTTACAGTGGAACAGATTAAAGCTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
*
26750538 AGCGAATCTTATTTCCCTGGCGTTACAGTGGAACAGATTAAAGCTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * ** * *
26750589 AACAAATCTTATTTATCTGGCATTGCAGTGGAACAGATTGAAGCTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * * * *
26750640 CGCAAATTTTTTTTCCCTAGCATTGCAGTGGAACAGATTAAAGCTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * *
26750691 AGCGAATCTTTTTTCCCTGGCATTGCAATGGAACAGATTAAAGCTGAAGGC
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * *
26750742 AGCGAATCTTATTTCCCTGGCGTTGTAGTGGAACAGATTAAAGTTGAAGGT
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * * * *
26750793 AGGGAATCTTATTTCCCTAGTGTTGCAGTGGAACAGATTAAAGCTAAAGGT
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
* * *
26750844 AGCGAATCTTATTTCTCTGGTGTTGCAGTGGAATAGATTAAAGCTG
1 AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTG
26750890 CAAATTATGG
Statistics
Matches: 314, Mismatches: 38, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
51 314 1.00
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.29
Consensus pattern (51 bp):
AGCGAATCTTATTTCCCTGGCGTTGCAGTGGAACAGATTAAAGCTGAAGGC
Found at i:26750999 original size:44 final size:44
Alignment explanation
Indices: 26750905--26751012 Score: 132
Period size: 44 Copynumber: 2.5 Consensus size: 44
26750895 TATGGCGGAT
* *
26750905 CTTATCTTCCTGAAGTTGTAGTAGAGCAGATTGAAGCCATCAGC
1 CTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGCCACCAGC
* *
26750949 CTTATCTTCCTGAAGTTGCAGT-GAAGCAGATTGAAGTCACCAATC
1 CTTATCTTCCTGAAGTTGCAGTAG-AGCAGATTGAAGCCACC-AGC
26750994 C-TATC-TCCTTGAAGTTGCA
1 CTTATCTTCC-TGAAGTTGCA
26751013 ATGGGGCGGA
Statistics
Matches: 57, Mismatches: 4, Indels: 6
0.85 0.06 0.09
Matches are distributed among these distances:
43 4 0.07
44 50 0.88
45 3 0.05
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (44 bp):
CTTATCTTCCTGAAGTTGCAGTAGAGCAGATTGAAGCCACCAGC
Found at i:26752739 original size:21 final size:20
Alignment explanation
Indices: 26752688--26752739 Score: 68
Period size: 20 Copynumber: 2.5 Consensus size: 20
26752678 GTTGAAGCTT
26752688 AATATTATTTTAAATTCATC
1 AATATTATTTTAAATTCATC
* * *
26752708 ATTAATATTTTAAATTTATC
1 AATATTATTTTAAATTCATC
26752728 ACATATTATTTT
1 A-ATATTATTTT
26752740 TCTTAAATTT
Statistics
Matches: 26, Mismatches: 5, Indels: 1
0.81 0.16 0.03
Matches are distributed among these distances:
20 18 0.69
21 8 0.31
ACGTcount: A:0.38, C:0.08, G:0.00, T:0.54
Consensus pattern (20 bp):
AATATTATTTTAAATTCATC
Found at i:26752745 original size:25 final size:25
Alignment explanation
Indices: 26752717--26752764 Score: 78
Period size: 25 Copynumber: 1.9 Consensus size: 25
26752707 CATTAATATT
26752717 TTAAATTTATCACATATTATTTTTC
1 TTAAATTTATCACATATTATTTTTC
**
26752742 TTAAATTTATCATGTATTATTTT
1 TTAAATTTATCACATATTATTTT
26752765 ATATATTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.31, C:0.08, G:0.02, T:0.58
Consensus pattern (25 bp):
TTAAATTTATCACATATTATTTTTC
Found at i:26753277 original size:33 final size:35
Alignment explanation
Indices: 26753230--26753295 Score: 93
Period size: 33 Copynumber: 1.9 Consensus size: 35
26753220 ATTTCAAATT
26753230 CATATATATATTGTTTAT-T-TTGA-AATTTTATG
1 CATATATATATTGTTTATATATTGATAATTTTATG
*
26753262 CATATAATTTATTGTTTATATATTGATAATTTTA
1 CATAT-ATATATTGTTTATATATTGATAATTTTA
26753296 AATTTCCTTT
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 5 0.17
33 12 0.41
34 1 0.03
35 4 0.14
36 7 0.24
ACGTcount: A:0.33, C:0.03, G:0.08, T:0.56
Consensus pattern (35 bp):
CATATATATATTGTTTATATATTGATAATTTTATG
Found at i:26756766 original size:3 final size:3
Alignment explanation
Indices: 26756760--26756793 Score: 68
Period size: 3 Copynumber: 11.3 Consensus size: 3
26756750 AAAGTTTGTA
26756760 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
1 AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT AAT A
26756794 TGCTTCGACA
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 31 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (3 bp):
AAT
Found at i:26761914 original size:8 final size:8
Alignment explanation
Indices: 26761903--26761947 Score: 53
Period size: 8 Copynumber: 6.1 Consensus size: 8
26761893 GCTAAATGTT
26761903 TGTTTATA
1 TGTTTATA
26761911 TGTTTATA
1 TGTTTATA
*
26761919 TATTTATA
1 TGTTTATA
26761927 TG--T-T-
1 TGTTTATA
26761931 TGTTTATA
1 TGTTTATA
26761939 TGTTTATA
1 TGTTTATA
26761947 T
1 T
26761948 CTGGAAATAA
Statistics
Matches: 31, Mismatches: 2, Indels: 8
0.76 0.05 0.20
Matches are distributed among these distances:
4 2 0.06
5 1 0.03
6 2 0.06
7 1 0.03
8 25 0.81
ACGTcount: A:0.24, C:0.00, G:0.11, T:0.64
Consensus pattern (8 bp):
TGTTTATA
Found at i:26762855 original size:42 final size:42
Alignment explanation
Indices: 26762804--26762923 Score: 197
Period size: 42 Copynumber: 2.9 Consensus size: 42
26762794 CAATTTTTAT
26762804 TATTTATAACAAATTAAAGAGTTATTAATTTAAAATTCTATA
1 TATTTATAACAAATTAAAGAGTTATTAATTTAAAATTCTATA
***
26762846 TATTTATAACAAATTAATA-ACAAATTAATTTAAAATTCTATA
1 TATTTATAACAAATTAA-AGAGTTATTAATTTAAAATTCTATA
26762888 TATTTATAACAAATTAAAGAGTTATTAATTTAAAAT
1 TATTTATAACAAATTAAAGAGTTATTAATTTAAAAT
26762924 ATTTAATAAC
Statistics
Matches: 70, Mismatches: 6, Indels: 4
0.88 0.08 0.05
Matches are distributed among these distances:
41 1 0.01
42 68 0.97
43 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.03, T:0.42
Consensus pattern (42 bp):
TATTTATAACAAATTAAAGAGTTATTAATTTAAAATTCTATA
Found at i:26765468 original size:9 final size:9
Alignment explanation
Indices: 26765450--26765504 Score: 74
Period size: 9 Copynumber: 6.1 Consensus size: 9
26765440 GGTTGCAAAA
*
26765450 AGGACAATG
1 AGGACGATG
26765459 AGGACGATG
1 AGGACGATG
*
26765468 ACGACGATG
1 AGGACGATG
*
26765477 ACGACGATG
1 AGGACGATG
26765486 AGGACGATG
1 AGGACGATG
*
26765495 AGGATGATG
1 AGGACGATG
26765504 A
1 A
26765505 TGTTTCTTCG
Statistics
Matches: 42, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
9 42 1.00
ACGTcount: A:0.36, C:0.13, G:0.38, T:0.13
Consensus pattern (9 bp):
AGGACGATG
Found at i:26765571 original size:22 final size:22
Alignment explanation
Indices: 26765546--26765610 Score: 77
Period size: 22 Copynumber: 3.2 Consensus size: 22
26765536 CTTCTAAATA
26765546 TGTTGATGGACAATTTATATTT
1 TGTTGATGGACAATTTATATTT
* *
26765568 TGTT-AT-GA-AA-TTA-AATA
1 TGTTGATGGACAATTTATATTT
26765585 TGTTGATGGACAATTTATATTT
1 TGTTGATGGACAATTTATATTT
26765607 TGTT
1 TGTT
26765611 ATGAAATTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 4 0.12
20 4 0.12
21 5 0.15
22 10 0.29
ACGTcount: A:0.31, C:0.03, G:0.17, T:0.49
Consensus pattern (22 bp):
TGTTGATGGACAATTTATATTT
Found at i:26765579 original size:19 final size:19
Alignment explanation
Indices: 26765557--26765618 Score: 65
Period size: 19 Copynumber: 3.2 Consensus size: 19
26765547 GTTGATGGAC
26765557 AATTTATATTTTGTTATGA
1 AATTTATATTTTGTTATGA
* *
26765576 AA-TTA-AATATGTTGATGGA
1 AATTTATATTTTGTT-AT-GA
26765595 CAATTTATATTTTGTTATGA
1 -AATTTATATTTTGTTATGA
26765615 AATT
1 AATT
26765619 AAATATGTTG
Statistics
Matches: 34, Mismatches: 4, Indels: 10
0.71 0.08 0.21
Matches are distributed among these distances:
17 6 0.18
18 5 0.15
19 8 0.24
20 4 0.12
21 5 0.15
22 6 0.18
ACGTcount: A:0.35, C:0.02, G:0.13, T:0.50
Consensus pattern (19 bp):
AATTTATATTTTGTTATGA
Found at i:26765583 original size:39 final size:39
Alignment explanation
Indices: 26765540--26765633 Score: 188
Period size: 39 Copynumber: 2.4 Consensus size: 39
26765530 GCTTTCCTTC
26765540 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
1 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
26765579 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
1 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
26765618 TAAATATGTTGATGGA
1 TAAATATGTTGATGGA
26765634 TTAATGTATG
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
39 55 1.00
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (39 bp):
TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
Found at i:26765652 original size:39 final size:38
Alignment explanation
Indices: 26765540--26765652 Score: 120
Period size: 39 Copynumber: 2.9 Consensus size: 38
26765530 GCTTTCCTTC
* * *
26765540 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
1 TAAATATGTTGATGGACAATGTATA-TATATTATGAAAT
* * *
26765579 TAAATATGTTGATGGACAATTTATATTTTGTTATGAAAT
1 TAAATATGTTGATGGACAATGTATA-TATATTATGAAAT
*
26765618 TAAATATGTTGATGGATTAATGTATGA-ATATTATG
1 TAAATATGTTGATGGA-CAATGTAT-ATATATTATG
26765653 GTTTGTTGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
39 61 0.90
40 6 0.09
41 1 0.01
ACGTcount: A:0.36, C:0.02, G:0.17, T:0.45
Consensus pattern (38 bp):
TAAATATGTTGATGGACAATGTATATATATTATGAAAT
Found at i:26770011 original size:18 final size:17
Alignment explanation
Indices: 26769977--26770017 Score: 55
Period size: 18 Copynumber: 2.4 Consensus size: 17
26769967 TAACTTCTCT
*
26769977 AATTAAATCTTGTTAAA
1 AATTAAATCTTGGTAAA
*
26769994 AATTCAAATGTTGGTAAA
1 AATT-AAATCTTGGTAAA
26770012 AATTAA
1 AATTAA
26770018 TCCATTTAAG
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
17 6 0.29
18 15 0.71
ACGTcount: A:0.49, C:0.05, G:0.10, T:0.37
Consensus pattern (17 bp):
AATTAAATCTTGGTAAA
Found at i:26774071 original size:40 final size:40
Alignment explanation
Indices: 26774008--26774092 Score: 100
Period size: 40 Copynumber: 2.1 Consensus size: 40
26773998 TAATCGAGTT
* * *
26774008 TGATGTACTTATACTATTATTTTTAATTATTTTTCATATA
1 TGATATACTTATACTATTATTTTTAATTATTGTGCATATA
* * *
26774048 TGATATACTTATATTA-TATTTTTTTATTATTGTGCATATT
1 TGATATACTTATACTATTA-TTTTTAATTATTGTGCATATA
26774088 TGATA
1 TGATA
26774093 AAGAATTATG
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
39 2 0.05
40 36 0.95
ACGTcount: A:0.29, C:0.06, G:0.07, T:0.58
Consensus pattern (40 bp):
TGATATACTTATACTATTATTTTTAATTATTGTGCATATA
Found at i:26778783 original size:30 final size:30
Alignment explanation
Indices: 26778726--26778783 Score: 71
Period size: 30 Copynumber: 1.9 Consensus size: 30
26778716 AATAAAAATA
* *
26778726 TTAAAATCATATTTATATTGTACAATAACT
1 TTAAAATCATATTAATATTGAACAATAACT
* * *
26778756 TTAAAATTATATTAATGTTGAATAATAA
1 TTAAAATCATATTAATATTGAACAATAA
26778784 TTAAAAAAAT
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
30 23 1.00
ACGTcount: A:0.47, C:0.05, G:0.05, T:0.43
Consensus pattern (30 bp):
TTAAAATCATATTAATATTGAACAATAACT
Found at i:26783346 original size:30 final size:29
Alignment explanation
Indices: 26783307--26783367 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
26783297 ATACATGTAT
26783307 ATCTTTTTATATGTTCA-TAATT-TTTATTC
1 ATCTTTTTAT-TGTT-ATTAATTATTTATTC
*
26783336 ATCTTCTTTATTGTTATTATTTATTTATTC
1 ATCTT-TTTATTGTTATTAATTATTTATTC
26783366 AT
1 AT
26783368 GTGTTCATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 1 0.04
29 13 0.46
30 14 0.50
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.64
Consensus pattern (29 bp):
ATCTTTTTATTGTTATTAATTATTTATTC
Found at i:26786987 original size:26 final size:27
Alignment explanation
Indices: 26786932--26786980 Score: 68
Period size: 25 Copynumber: 1.9 Consensus size: 27
26786922 ATAAAATACA
*
26786932 TCTTTGCATTCCTTTTTGAGCCAATAT
1 TCTTTGCATTCCTTTTTGAGACAATAT
26786959 TCTTT-CATT-CTTTTTGA-ACAAT
1 TCTTTGCATTCCTTTTTGAGACAAT
26786981 TATTTCTGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
24 4 0.19
25 8 0.38
26 4 0.19
27 5 0.24
ACGTcount: A:0.20, C:0.20, G:0.08, T:0.51
Consensus pattern (27 bp):
TCTTTGCATTCCTTTTTGAGACAATAT
Found at i:26787659 original size:7 final size:7
Alignment explanation
Indices: 26787649--26787695 Score: 60
Period size: 7 Copynumber: 6.7 Consensus size: 7
26787639 TGAAAAAGAA
26787649 AAAAATC
1 AAAAATC
26787656 AAAAATC
1 AAAAATC
*
26787663 AAAACA-A
1 AAAA-ATC
*
26787670 AAAAAAC
1 AAAAATC
26787677 AAAAATC
1 AAAAATC
26787684 AAAAATC
1 AAAAATC
26787691 AAAAA
1 AAAAA
26787696 AATCAAAGTC
Statistics
Matches: 35, Mismatches: 3, Indels: 4
0.83 0.07 0.10
Matches are distributed among these distances:
6 1 0.03
7 33 0.94
8 1 0.03
ACGTcount: A:0.79, C:0.13, G:0.00, T:0.09
Consensus pattern (7 bp):
AAAAATC
Found at i:26787666 original size:22 final size:21
Alignment explanation
Indices: 26787635--26787710 Score: 84
Period size: 22 Copynumber: 3.5 Consensus size: 21
26787625 AATCAAAATG
*
26787635 AAAATGAAAAAGAAAAAAATCA
1 AAAATCAAAAA-AAAAAAATCA
26787657 AAAATCAAAACAAAAAAAA-CA
1 AAAATCAAAA-AAAAAAAATCA
26787678 AAAATCAAAAATCAAAAAAATC-
1 AAAATCAAAAA--AAAAAAATCA
*
26787700 AAAGTCAAAAA
1 AAAATCAAAAA
26787711 TAGGAAAAAG
Statistics
Matches: 48, Mismatches: 2, Indels: 8
0.83 0.03 0.14
Matches are distributed among these distances:
20 1 0.02
21 12 0.25
22 33 0.69
23 2 0.04
ACGTcount: A:0.76, C:0.11, G:0.04, T:0.09
Consensus pattern (21 bp):
AAAATCAAAAAAAAAAAATCA
Found at i:26787709 original size:28 final size:28
Alignment explanation
Indices: 26787624--26787694 Score: 92
Period size: 28 Copynumber: 2.6 Consensus size: 28
26787614 CAAAAGGCTC
* * *
26787624 AAATC-AAAATGAAAATGAAAAAGAA-AA
1 AAATCAAAAATCAAAA-CAAAAAAAACAA
26787651 AAATCAAAAATCAAAACAAAAAAAACAA
1 AAATCAAAAATCAAAACAAAAAAAACAA
26787679 AAATCAAAAATCAAAA
1 AAATCAAAAATCAAAA
26787695 AAATCAAAGT
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
27 12 0.31
28 27 0.69
ACGTcount: A:0.76, C:0.10, G:0.04, T:0.10
Consensus pattern (28 bp):
AAATCAAAAATCAAAACAAAAAAAACAA
Found at i:26787710 original size:16 final size:16
Alignment explanation
Indices: 26787647--26787702 Score: 68
Period size: 16 Copynumber: 3.8 Consensus size: 16
26787637 AATGAAAAAG
26787647 AAAAAAATCAAAAATC
1 AAAAAAATCAAAAATC
26787663 AAAACAAA--AAAAA-C
1 AAAA-AAATCAAAAATC
26787677 --AAAAATCAAAAATC
1 AAAAAAATCAAAAATC
26787691 AAAAAAATCAAA
1 AAAAAAATCAAA
26787703 GTCAAAAATA
Statistics
Matches: 34, Mismatches: 0, Indels: 12
0.74 0.00 0.26
Matches are distributed among these distances:
11 3 0.09
12 2 0.06
13 5 0.15
14 2 0.06
15 5 0.15
16 14 0.41
17 3 0.09
ACGTcount: A:0.79, C:0.12, G:0.00, T:0.09
Consensus pattern (16 bp):
AAAAAAATCAAAAATC
Found at i:26787711 original size:22 final size:23
Alignment explanation
Indices: 26787647--26787711 Score: 91
Period size: 21 Copynumber: 3.0 Consensus size: 23
26787637 AATGAAAAAG
26787647 AAAAAAATCAAAAATC-AAAA-C
1 AAAAAAATCAAAAATCAAAAATC
*
26787668 AAAAAAAACAAAAATCAAAAATC
1 AAAAAAATCAAAAATCAAAAATC
*
26787691 AAAAAAATC-AAAGTCAAAAAT
1 AAAAAAATCAAAAATCAAAAAT
26787712 AGGAAAAAGG
Statistics
Matches: 39, Mismatches: 3, Indels: 3
0.87 0.07 0.07
Matches are distributed among these distances:
21 15 0.38
22 15 0.38
23 9 0.23
ACGTcount: A:0.75, C:0.12, G:0.02, T:0.11
Consensus pattern (23 bp):
AAAAAAATCAAAAATCAAAAATC
Found at i:26792017 original size:2 final size:2
Alignment explanation
Indices: 26792010--26792037 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
26792000 TTTGTATGTG
26792010 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
26792038 CTAATACATA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (2 bp):
TA
Found at i:26792151 original size:30 final size:29
Alignment explanation
Indices: 26792112--26792172 Score: 72
Period size: 30 Copynumber: 2.1 Consensus size: 29
26792102 ATACATGTAT
26792112 ATCTTTTTATATGTTCA-TAATT-TTTATTC
1 ATCTTTTTAT-TGTT-ATTAATTATTTATTC
*
26792141 ATCTTCTTTATTGTTATTATTTATTTATTC
1 ATCTT-TTTATTGTTATTAATTATTTATTC
26792171 AT
1 AT
26792173 GTGTTCATCA
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
28 1 0.04
29 13 0.46
30 14 0.50
ACGTcount: A:0.23, C:0.10, G:0.03, T:0.64
Consensus pattern (29 bp):
ATCTTTTTATTGTTATTAATTATTTATTC
Found at i:26793251 original size:50 final size:52
Alignment explanation
Indices: 26793151--26793263 Score: 167
Period size: 50 Copynumber: 2.2 Consensus size: 52
26793141 ATGAGTTTCT
* *
26793151 TAATGCATGACTTAATTTAAAGATACAAACTTTAACTAACATGGGAGTTACA
1 TAATGCATGACATAATTTAAAGATACAAACTTTAACTAACATGAGAGTTACA
* * *
26793203 TAATGCATGACATAATTT-ATGATATAATC-TTAACTAACATGAGAGTTACA
1 TAATGCATGACATAATTTAAAGATACAAACTTTAACTAACATGAGAGTTACA
26793253 TAATGCATGAC
1 TAATGCATGAC
26793264 TTTATTAAAT
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
50 31 0.55
51 8 0.14
52 17 0.30
ACGTcount: A:0.42, C:0.13, G:0.13, T:0.32
Consensus pattern (52 bp):
TAATGCATGACATAATTTAAAGATACAAACTTTAACTAACATGAGAGTTACA
Found at i:26794492 original size:18 final size:18
Alignment explanation
Indices: 26794469--26794507 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 18
26794459 TGTTGATATT
*
26794469 TTTTAATA-TTTATTTCAA
1 TTTTAATAGTGTATTT-AA
26794487 TTTTAATAGTGTATTTAA
1 TTTTAATAGTGTATTTAA
26794505 TTT
1 TTT
26794508 GTAAAAGATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
18 13 0.68
19 6 0.32
ACGTcount: A:0.31, C:0.03, G:0.05, T:0.62
Consensus pattern (18 bp):
TTTTAATAGTGTATTTAA
Found at i:26801202 original size:4 final size:4
Alignment explanation
Indices: 26801167--26801227 Score: 54
Period size: 4 Copynumber: 15.2 Consensus size: 4
26801157 TAATTTGGTT
* * *
26801167 TTTA TTTTA TTTG TTT- TGTTA TTTA ATTA TTTA TTTA -TTA TTTA ATTA
1 TTTA -TTTA TTTA TTTA T-TTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA
*
26801215 TTTA TTTA CTTA T
1 TTTA TTTA TTTA T
26801228 ATAACCTTAC
Statistics
Matches: 46, Mismatches: 7, Indels: 7
0.77 0.12 0.12
Matches are distributed among these distances:
3 4 0.09
4 37 0.80
5 5 0.11
ACGTcount: A:0.25, C:0.02, G:0.03, T:0.70
Consensus pattern (4 bp):
TTTA
Found at i:26801209 original size:19 final size:20
Alignment explanation
Indices: 26801185--26801227 Score: 79
Period size: 19 Copynumber: 2.2 Consensus size: 20
26801175 ATTTGTTTTG
26801185 TTATTTAATTATTTATTTA-
1 TTATTTAATTATTTATTTAC
26801204 TTATTTAATTATTTATTTAC
1 TTATTTAATTATTTATTTAC
26801224 TTAT
1 TTAT
26801228 ATAACCTTAC
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.30, C:0.02, G:0.00, T:0.67
Consensus pattern (20 bp):
TTATTTAATTATTTATTTAC
Found at i:26811975 original size:16 final size:16
Alignment explanation
Indices: 26811954--26811989 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
26811944 TTTGGTTCGC
26811954 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
26811970 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
26811986 TGTA
1 TGTA
26811990 ATAGCAAATC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.36, T:0.39
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:26812313 original size:157 final size:157
Alignment explanation
Indices: 26812112--26812428 Score: 571
Period size: 157 Copynumber: 2.0 Consensus size: 157
26812102 TAGAATACCC
*
26812112 TTAGCATAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTAGTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTAGTA
* * *
26812177 TTATCAATAATAAATATTTTAATCATATTTAAACATAATTATTATTAAATATATTTTAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
26812242 TATATAATTGAATAAAATTCTTAATAA
131 TATATAATTGAATAAAATTCTTAATAA
* *
26812269 TTAGCAGAAATTTGTTTTGGTAAATTATTATTGTTATTGTTATTTAAATTTTAATAAGATTATTA
1 TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTAGTA
26812334 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
66 ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
*
26812399 TATATAATTTAATAAAATTCTTAATAA
131 TATATAATTGAATAAAATTCTTAATAA
26812426 TTA
1 TTA
26812429 ATATTCTTAT
Statistics
Matches: 153, Mismatches: 7, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
157 153 1.00
ACGTcount: A:0.44, C:0.03, G:0.06, T:0.47
Consensus pattern (157 bp):
TTAGCAGAAATTTGTTTTGGTAAATGATTATTGTTATTGTTATTTAAATTTTAATAAGATTAGTA
ATATCAATAATAAATAATTTAATCATATTTAAACATAATTATTATTAAATATATTATAATTAAAA
TATATAATTGAATAAAATTCTTAATAA
Found at i:26812399 original size:16 final size:16
Alignment explanation
Indices: 26812362--26812403 Score: 52
Period size: 15 Copynumber: 2.7 Consensus size: 16
26812352 TTAATCATAT
*
26812362 TTAAACATA-ATTATTA
1 TTAAA-ATATATTATAA
26812378 TT-AAATATATTATAA
1 TTAAAATATATTATAA
26812393 TTAAAATATAT
1 TTAAAATATAT
26812404 AATTTAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
14 3 0.13
15 10 0.43
16 10 0.43
ACGTcount: A:0.52, C:0.02, G:0.00, T:0.45
Consensus pattern (16 bp):
TTAAAATATATTATAA
Found at i:26812410 original size:14 final size:15
Alignment explanation
Indices: 26812371--26812412 Score: 52
Period size: 15 Copynumber: 2.9 Consensus size: 15
26812361 TTTAAACATA
*
26812371 ATTATTATTAAATAT
1 ATTATAATTAAATAT
26812386 ATTATAATTAAA-AT
1 ATTATAATTAAATAT
*
26812400 A-TATAATTTAATA
1 ATTATAATTAAATA
26812413 AAATTCTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
13 9 0.38
14 4 0.17
15 11 0.46
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (15 bp):
ATTATAATTAAATAT
Found at i:26812462 original size:61 final size:61
Alignment explanation
Indices: 26812397--26812587 Score: 198
Period size: 61 Copynumber: 3.2 Consensus size: 61
26812387 TTATAATTAA
26812397 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
* * * * * * * * *
26812458 AATATATGATACT-GTAAAA-T-AT-A-AATTAACATAATTATTAT-TAAATATA-TTATAATTA
1 AATATATAAT-TTAATAAAATTCTTAATAATT-A-AT-ATTCTTATATGAATTTACTCA-AATCA
*
26812516 A
61 T
26812517 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
1 AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
26812578 AATATATAAT
1 AATATATAAT
26812588 ACTATAAATG
Statistics
Matches: 98, Mismatches: 20, Indels: 24
0.69 0.14 0.17
Matches are distributed among these distances:
57 4 0.04
58 5 0.05
59 27 0.28
60 16 0.16
61 37 0.38
62 5 0.05
63 4 0.04
ACGTcount: A:0.49, C:0.06, G:0.02, T:0.43
Consensus pattern (61 bp):
AATATATAATTTAATAAAATTCTTAATAATTAATATTCTTATATGAATTTACTCAAATCAT
Found at i:26812500 original size:120 final size:121
Alignment explanation
Indices: 26812360--26812657 Score: 496
Period size: 120 Copynumber: 2.5 Consensus size: 121
26812350 ATTTAATCAT
*
26812360 ATTTAAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
* *
26812425 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATGATACTGTAAAAT-ATAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATAATACTAT-AAATGA-AA
26812482 A-TT-AACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
26812545 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATAATACTATAAATGAAA
66 ATTAATATTCTTATATGAATTTACTCAAATCATAATATATAATACTATAAATGAAA
* * *
26812601 ATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATT
26812658 TAAAATAATT
Statistics
Matches: 168, Mismatches: 5, Indels: 8
0.93 0.03 0.04
Matches are distributed among these distances:
119 7 0.04
120 156 0.93
121 4 0.02
122 1 0.01
ACGTcount: A:0.50, C:0.05, G:0.02, T:0.43
Consensus pattern (121 bp):
ATTTGAACATAATTATTATTAAATATATTATAATTAAAATATATAATTTAATAAAATTCTTAATA
ATTAATATTCTTATATGAATTTACTCAAATCATAATATATAATACTATAAATGAAA
Found at i:26812530 original size:14 final size:15
Alignment explanation
Indices: 26812481--26812532 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
26812471 GTAAAATATA
26812481 AATTAACATA-ATTAT
1 AATTAA-ATATATTAT
*
26812496 TATTAAATATATTAT
1 AATTAAATATATTAT
26812511 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
26812524 AATTTAATA
1 AATTAAATA
26812533 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 7 0.22
15 16 0.50
ACGTcount: A:0.54, C:0.02, G:0.00, T:0.44
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:26812793 original size:83 final size:90
Alignment explanation
Indices: 26812673--26812873 Score: 247
Period size: 83 Copynumber: 2.3 Consensus size: 90
26812663 TAATTATAAC
* * * *
26812673 TAATAAATGTTCATTTTATGAATTTGTATAATTTAAAATAA-TAATAATTACATATAATTT-A-A
1 TAATAAATGTTC-TTATATGAATTTATACAATTTAAAATAATTAAT-ATTAAATATAATTTAATA
*
26812735 -T-A-AT-TAATAT-TAAAATTCTTGA
64 GTGATATATAATATATAAAATTCTTAA
*
26812757 TAATAAATTTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
1 TAATAAATGTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
*
26812822 GATATATAATTTCATAAAATTCTTAA
66 GATATATAATAT-ATAAAATTCTTAA
26812848 TAATAAAATGTTCTTATATGAATTTA
1 TAAT-AAATGTTCTTATATGAATTTA
26812874 CTAAAATCAA
Statistics
Matches: 99, Mismatches: 8, Indels: 12
0.83 0.07 0.10
Matches are distributed among these distances:
83 38 0.38
84 16 0.16
85 1 0.01
86 1 0.01
87 1 0.01
88 2 0.02
89 5 0.05
91 15 0.15
92 20 0.20
ACGTcount: A:0.46, C:0.04, G:0.04, T:0.45
Consensus pattern (90 bp):
TAATAAATGTTCTTATATGAATTTATACAATTTAAAATAATTAATATTAAATATAATTTAATAGT
GATATATAATATATAAAATTCTTAA
Found at i:26817489 original size:16 final size:16
Alignment explanation
Indices: 26817452--26817491 Score: 62
Period size: 16 Copynumber: 2.5 Consensus size: 16
26817442 TAAATAAAAT
* *
26817452 TAAAACTAATTGTTAT
1 TAAAATTAATTGTTAG
26817468 TAAAATTAATTGTTAG
1 TAAAATTAATTGTTAG
26817484 TAAAATTA
1 TAAAATTA
26817492 TCAAATTATT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
16 22 1.00
ACGTcount: A:0.47, C:0.03, G:0.07, T:0.42
Consensus pattern (16 bp):
TAAAATTAATTGTTAG
Found at i:26817570 original size:59 final size:59
Alignment explanation
Indices: 26817502--26817641 Score: 262
Period size: 59 Copynumber: 2.4 Consensus size: 59
26817492 TCAAATTATT
* *
26817502 AATTGTTAATTGGATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
26817561 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
1 AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
26817620 AATTATTAATTGTATTAATTGT
1 AATTATTAATTGTATTAATTGT
26817642 ATTAATTGTT
Statistics
Matches: 79, Mismatches: 2, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
59 79 1.00
ACGTcount: A:0.39, C:0.04, G:0.10, T:0.46
Consensus pattern (59 bp):
AATTATTAATTGTATTAATTGTTGTAATAAAATCTAACATTTGATTAGTAAATTTATCA
Found at i:26817635 original size:9 final size:9
Alignment explanation
Indices: 26817623--26817650 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
26817613 TTTATCAAAT
26817623 TATTAATTG
1 TATTAATTG
26817632 TATTAATTG
1 TATTAATTG
26817641 TATTAATTG
1 TATTAATTG
26817650 T
1 T
26817651 TGTAACAAAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 19 1.00
ACGTcount: A:0.32, C:0.00, G:0.11, T:0.57
Consensus pattern (9 bp):
TATTAATTG
Found at i:26817787 original size:22 final size:24
Alignment explanation
Indices: 26817747--26817790 Score: 74
Period size: 24 Copynumber: 1.9 Consensus size: 24
26817737 AAATAAACTT
26817747 AAAATAAAAAACTATTATATTTTA
1 AAAATAAAAAACTATTATATTTTA
26817771 AAAATAAAAAA-TA-TATATTT
1 AAAATAAAAAACTATTATATTT
26817791 AATATTTTTC
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
22 7 0.35
23 2 0.10
24 11 0.55
ACGTcount: A:0.61, C:0.02, G:0.00, T:0.36
Consensus pattern (24 bp):
AAAATAAAAAACTATTATATTTTA
Found at i:26818171 original size:13 final size:13
Alignment explanation
Indices: 26818153--26818213 Score: 63
Period size: 13 Copynumber: 4.7 Consensus size: 13
26818143 AGTTTTTCGT
26818153 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
26818166 TGCTTTTGAAAAG
1 TGCTTTTGAAAAG
**
26818179 TG-TTGAGAGAAAG
1 TGCTTTTGA-AAAG
26818192 TGCTTTT-AAGAAG
1 TGCTTTTGAA-AAG
*
26818205 TGTTTTTGA
1 TGCTTTTGA
26818214 GAAATTTGAG
Statistics
Matches: 39, Mismatches: 5, Indels: 7
0.76 0.10 0.14
Matches are distributed among these distances:
12 5 0.13
13 31 0.79
14 3 0.08
ACGTcount: A:0.30, C:0.05, G:0.26, T:0.39
Consensus pattern (13 bp):
TGCTTTTGAAAAG
Found at i:26818499 original size:21 final size:19
Alignment explanation
Indices: 26818431--26818503 Score: 65
Period size: 21 Copynumber: 3.6 Consensus size: 19
26818421 AGTAATTAAT
* *
26818431 ATTAATTATTTATTAAATTTA
1 ATTAAATATTTA--AAATATA
*
26818452 ATTAGAATATATAAAATATA
1 ATTA-AATATTTAAAATATA
*
26818472 TTTAAATATTTAAATATAATA
1 ATTAAATATTTAAA-AT-ATA
26818493 ATTAAATATTT
1 ATTAAATATTT
26818504 TTAATTAGAT
Statistics
Matches: 43, Mismatches: 6, Indels: 6
0.78 0.11 0.11
Matches are distributed among these distances:
19 9 0.21
20 11 0.26
21 17 0.40
22 6 0.14
ACGTcount: A:0.51, C:0.00, G:0.01, T:0.48
Consensus pattern (19 bp):
ATTAAATATTTAAAATATA
Found at i:26818501 original size:29 final size:29
Alignment explanation
Indices: 26818384--26818503 Score: 79
Period size: 29 Copynumber: 4.0 Consensus size: 29
26818374 ACTTATTGTT
26818384 AATATTTTAATATATAATATT-AAT-TTTA
1 AATATTTTAA-ATATAATATTAAATATTTA
* *
26818412 AATATTTTAAGTAATTAATATTAATTATTTA
1 AATATTTTAAAT-A-TAATATTAAATATTTA
* *
26818443 TTAA-A-TTTAATTAGAATATATAAAATATATTTA
1 --AATATTTTAAATATAATAT-T--AA-ATATTTA
26818476 AATA-TTTAAATATAATAATTAAATATTT
1 AATATTTTAAATATAAT-ATTAAATATTT
26818504 TTAATTAGAT
Statistics
Matches: 73, Mismatches: 7, Indels: 23
0.71 0.07 0.22
Matches are distributed among these distances:
27 1 0.01
28 11 0.15
29 18 0.25
30 6 0.08
31 12 0.16
32 15 0.21
33 10 0.14
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.49
Consensus pattern (29 bp):
AATATTTTAAATATAATATTAAATATTTA
Found at i:26818507 original size:31 final size:31
Alignment explanation
Indices: 26818407--26818507 Score: 82
Period size: 31 Copynumber: 3.2 Consensus size: 31
26818397 ATAATATTAA
* *
26818407 TTTTAAATATTTTAAGTAATTAAT-ATTAATTAT
1 TTTTAAATA-TTTAAAT-A-TAATAATTAAATAT
* * *
26818440 TTATT-AA-ATTTAATTAGAATATATAAAATAT
1 TT-TTAAATATTTAAATATAATA-ATTAAATAT
*
26818471 ATTTAAATATTTAAATATAATAATTAAATAT
1 TTTTAAATATTTAAATATAATAATTAAATAT
26818502 TTTTAA
1 TTTTAA
26818508 TTAGATATTG
Statistics
Matches: 54, Mismatches: 9, Indels: 12
0.72 0.12 0.16
Matches are distributed among these distances:
29 3 0.06
30 3 0.06
31 29 0.54
32 13 0.24
33 4 0.07
34 2 0.04
ACGTcount: A:0.49, C:0.00, G:0.02, T:0.50
Consensus pattern (31 bp):
TTTTAAATATTTAAATATAATAATTAAATAT
Found at i:26820377 original size:72 final size:72
Alignment explanation
Indices: 26820301--26820435 Score: 216
Period size: 72 Copynumber: 1.9 Consensus size: 72
26820291 ATTTAGTAAA
* * * *
26820301 AAATAAGTAGAATATAAATTCAATATCTAAAGACCAAACATAAACAACTTTTAATAAAACTAGAT
1 AAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAACTAGAT
26820366 TACACAT
66 TACACAT
* *
26820373 AAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAATAACTATTGATAAAACTAG
1 AAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAACTAG
26820436 TTTAGCATTG
Statistics
Matches: 57, Mismatches: 6, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
72 57 1.00
ACGTcount: A:0.56, C:0.14, G:0.06, T:0.24
Consensus pattern (72 bp):
AAATAAGTAGAACATAAATTCAATATCCAAAAACCAAACATAAACAACTATTAATAAAACTAGAT
TACACAT
Found at i:26820887 original size:18 final size:18
Alignment explanation
Indices: 26820866--26820913 Score: 78
Period size: 18 Copynumber: 2.7 Consensus size: 18
26820856 TCCATCAATT
* *
26820866 TGAACATCATTTGAAATG
1 TGAACATCATTTAAAAAG
26820884 TGAACATCATTTAAAAAG
1 TGAACATCATTTAAAAAG
26820902 TGAACATCATTT
1 TGAACATCATTT
26820914 CTCATATTTT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
18 28 1.00
ACGTcount: A:0.42, C:0.12, G:0.12, T:0.33
Consensus pattern (18 bp):
TGAACATCATTTAAAAAG
Found at i:26823808 original size:25 final size:25
Alignment explanation
Indices: 26823780--26823876 Score: 143
Period size: 25 Copynumber: 4.1 Consensus size: 25
26823770 AGAGGAACAA
26823780 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
26823805 AGCACCAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
*
26823830 AGCACCAGCAGAGGATCAAAG-A--
1 AGCACCAGCAGAGGAACAAAGAACC
26823852 AG---CAGCAGAGGAACAAAGAACC
1 AGCACCAGCAGAGGAACAAAGAACC
26823874 AGC
1 AGC
26823877 GATGGGAGAA
Statistics
Matches: 66, Mismatches: 2, Indels: 10
0.85 0.03 0.13
Matches are distributed among these distances:
19 15 0.23
20 1 0.02
22 4 0.06
24 1 0.02
25 45 0.68
ACGTcount: A:0.47, C:0.26, G:0.26, T:0.01
Consensus pattern (25 bp):
AGCACCAGCAGAGGAACAAAGAACC
Found at i:26824293 original size:6 final size:6
Alignment explanation
Indices: 26824282--26824343 Score: 52
Period size: 6 Copynumber: 10.2 Consensus size: 6
26824272 ATAAAATTTT
* * * * ** *
26824282 ATATTA ATATTA ATAATG ATATTG ATATTG ATATTAA ATAAAA ATATTT
1 ATATTA ATATTA ATATTA ATATTA ATATTA ATATT-A ATATTA ATATTA
26824331 ATATTA ATATTA A
1 ATATTA ATATTA A
26824344 ATAAAATAAA
Statistics
Matches: 45, Mismatches: 10, Indels: 2
0.79 0.18 0.04
Matches are distributed among these distances:
6 42 0.93
7 3 0.07
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (6 bp):
ATATTA
Found at i:26824328 original size:25 final size:25
Alignment explanation
Indices: 26824267--26824349 Score: 109
Period size: 25 Copynumber: 3.4 Consensus size: 25
26824257 TTAAAATATA
26824267 ATTAAAT-AAAAT-TTTATATTAAT
1 ATTAAATAAAAATATTTATATTAAT
** * *
26824290 ATT-AATAATGATATTGATATTGAT
1 ATTAAATAAAAATATTTATATTAAT
26824314 ATTAAATAAAAATATTTATATTAAT
1 ATTAAATAAAAATATTTATATTAAT
26824339 ATTAAATAAAA
1 ATTAAATAAAA
26824350 TAAAAAAAAA
Statistics
Matches: 49, Mismatches: 8, Indels: 4
0.80 0.13 0.07
Matches are distributed among these distances:
22 3 0.06
23 6 0.12
24 12 0.24
25 28 0.57
ACGTcount: A:0.53, C:0.00, G:0.04, T:0.43
Consensus pattern (25 bp):
ATTAAATAAAAATATTTATATTAAT
Found at i:26825825 original size:17 final size:18
Alignment explanation
Indices: 26825805--26825839 Score: 54
Period size: 19 Copynumber: 1.9 Consensus size: 18
26825795 TATCAATATT
26825805 AAAAT-ATATATAAAATG
1 AAAATAATATATAAAATG
26825822 AAAATAAATATATAAAAT
1 AAAAT-AATATATAAAAT
26825840 TTAGAAACTA
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 5 0.31
19 11 0.69
ACGTcount: A:0.69, C:0.00, G:0.03, T:0.29
Consensus pattern (18 bp):
AAAATAATATATAAAATG
Found at i:26825846 original size:22 final size:21
Alignment explanation
Indices: 26825810--26825867 Score: 66
Period size: 22 Copynumber: 2.8 Consensus size: 21
26825800 ATATTAAAAT
26825810 ATATATAAAA-T-GAAAATAA
1 ATATATAAAATTAGAAAATAA
* *
26825829 ATATATAAAATTTAGAAACTAT
1 ATATATAAAA-TTAGAAAATAA
26825851 ATATATAAAATCTAGAA
1 ATATATAAAAT-TAGAA
26825868 GAAAAAAAAC
Statistics
Matches: 33, Mismatches: 2, Indels: 5
0.82 0.05 0.12
Matches are distributed among these distances:
19 10 0.30
21 2 0.06
22 21 0.64
ACGTcount: A:0.60, C:0.03, G:0.05, T:0.31
Consensus pattern (21 bp):
ATATATAAAATTAGAAAATAA
Found at i:26831956 original size:19 final size:19
Alignment explanation
Indices: 26831915--26831965 Score: 61
Period size: 18 Copynumber: 2.7 Consensus size: 19
26831905 GAATTAAAAA
*
26831915 AAAAAATCAAAATAATTTT
1 AAAAATTCAAAATAATTTT
26831934 -AAAATTCAAAAT-ATTTAT
1 AAAAATTCAAAATAATTT-T
26831952 AAAAATTCCAAAAT
1 AAAAATT-CAAAAT
26831966 TCTAAAGAAT
Statistics
Matches: 28, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
17 4 0.14
18 12 0.43
19 6 0.21
20 6 0.21
ACGTcount: A:0.61, C:0.08, G:0.00, T:0.31
Consensus pattern (19 bp):
AAAAATTCAAAATAATTTT
Found at i:26832376 original size:30 final size:30
Alignment explanation
Indices: 26832334--26832393 Score: 79
Period size: 30 Copynumber: 2.0 Consensus size: 30
26832324 CTCGAGCCTT
26832334 GCCATGAGCTTGCT-TTTCAGCAACCATGGC
1 GCCATGAGCTTGCTCTTT-AGCAACCATGGC
*
26832364 GCCATGCA-CTTGCTCTTTGGCAACCATGGC
1 GCCATG-AGCTTGCTCTTTAGCAACCATGGC
26832394 TTCTTCTCGC
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 23 0.85
31 4 0.15
ACGTcount: A:0.18, C:0.32, G:0.23, T:0.27
Consensus pattern (30 bp):
GCCATGAGCTTGCTCTTTAGCAACCATGGC
Found at i:26834579 original size:6 final size:6
Alignment explanation
Indices: 26834568--26834592 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
26834558 AATTTTATTT
26834568 AATATA AATATA AATATA AATATA A
1 AATATA AATATA AATATA AATATA A
26834593 CTTTATTATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (6 bp):
AATATA
Found at i:26836248 original size:9 final size:9
Alignment explanation
Indices: 26836234--26836258 Score: 50
Period size: 9 Copynumber: 2.8 Consensus size: 9
26836224 ATATAGGGAC
26836234 TAAAATGAA
1 TAAAATGAA
26836243 TAAAATGAA
1 TAAAATGAA
26836252 TAAAATG
1 TAAAATG
26836259 CAAAATATGT
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
9 16 1.00
ACGTcount: A:0.64, C:0.00, G:0.12, T:0.24
Consensus pattern (9 bp):
TAAAATGAA
Found at i:26839981 original size:24 final size:25
Alignment explanation
Indices: 26839929--26839991 Score: 74
Period size: 24 Copynumber: 2.6 Consensus size: 25
26839919 GTACATGTAT
* * *
26839929 GCTCATACGAGCTCTGAATCGGTAT
1 GCTCATACGAGCTGTGAAACGGTAA
*
26839954 GCTCTTACGAGCTGT-AAACGGTAA
1 GCTCATACGAGCTGTGAAACGGTAA
*
26839978 GCTCATATGAGCTG
1 GCTCATACGAGCTG
26839992 AATATCGGTA
Statistics
Matches: 32, Mismatches: 6, Indels: 1
0.82 0.15 0.03
Matches are distributed among these distances:
24 19 0.59
25 13 0.41
ACGTcount: A:0.25, C:0.22, G:0.25, T:0.27
Consensus pattern (25 bp):
GCTCATACGAGCTGTGAAACGGTAA
Found at i:26844551 original size:26 final size:26
Alignment explanation
Indices: 26844522--26844597 Score: 116
Period size: 26 Copynumber: 2.9 Consensus size: 26
26844512 TCTCATCTCT
26844522 ATTTTACCCCTAGTAAAATTTTGATG
1 ATTTTACCCCTAGTAAAATTTTGATG
* * *
26844548 ATTTTACCCCTAATAAGATTTTAATG
1 ATTTTACCCCTAGTAAAATTTTGATG
*
26844574 ATTTTAACCCTAGTAAAATTTTGA
1 ATTTTACCCCTAGTAAAATTTTGA
26844598 GAAAATATGT
Statistics
Matches: 43, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
26 43 1.00
ACGTcount: A:0.34, C:0.14, G:0.09, T:0.42
Consensus pattern (26 bp):
ATTTTACCCCTAGTAAAATTTTGATG
Found at i:26846022 original size:15 final size:16
Alignment explanation
Indices: 26846002--26846035 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
26845992 GAAACATTAA
26846002 AACAAAT-ATTAAAAC
1 AACAAATAATTAAAAC
26846017 AACAAATAAATTAAAAC
1 AACAAAT-AATTAAAAC
26846034 AA
1 AA
26846036 TATTAAAACA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
15 7 0.41
17 10 0.59
ACGTcount: A:0.71, C:0.12, G:0.00, T:0.18
Consensus pattern (16 bp):
AACAAATAATTAAAAC
Found at i:26846247 original size:23 final size:23
Alignment explanation
Indices: 26846203--26846265 Score: 74
Period size: 23 Copynumber: 2.7 Consensus size: 23
26846193 AACTACAGCG
26846203 AAACAACATAATAAAAAATTGCA
1 AAACAACATAATAAAAAATTGCA
* * * *
26846226 AAATAACATAATAAACAGTTGCG
1 AAACAACATAATAAAAAATTGCA
26846249 AAACAACAATAA-AAAAA
1 AAACAAC-ATAATAAAAA
26846266 CACAAAAATA
Statistics
Matches: 33, Mismatches: 6, Indels: 2
0.80 0.15 0.05
Matches are distributed among these distances:
23 29 0.88
24 4 0.12
ACGTcount: A:0.65, C:0.13, G:0.06, T:0.16
Consensus pattern (23 bp):
AAACAACATAATAAAAAATTGCA
Found at i:26859917 original size:51 final size:51
Alignment explanation
Indices: 26859855--26860042 Score: 206
Period size: 51 Copynumber: 3.7 Consensus size: 51
26859845 GGTTCACATC
*
26859855 GTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTA
1 GTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGGTACACGTA
* * * * * * *
26859906 GTATCCTGCACATCGTACTACACACGTGATCGA--AGTTATCCGGTACTCATA
1 GTAGCCTGCACATAGTACTACACATGTGA-CCATCA-CTATCCGGTACACGTA
* * *
26859957 GTAGCCTGCACATAGTAC-ACACATGCGACCTATCA-T-TCTGGCACACGTA
1 GTAGCCTGCACATAGTACTACACATGTGACC-ATCACTATCCGGTACACGTA
*
26860006 GTAGCATGCACATAGTACTACACATGTGACCATCACT
1 GTAGCCTGCACATAGTACTACACATGTGACCATCACT
26860043 TTCACTTTCA
Statistics
Matches: 111, Mismatches: 19, Indels: 15
0.77 0.13 0.10
Matches are distributed among these distances:
49 31 0.28
50 23 0.21
51 54 0.49
52 3 0.03
ACGTcount: A:0.30, C:0.29, G:0.17, T:0.24
Consensus pattern (51 bp):
GTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGGTACACGTA
Found at i:26860058 original size:100 final size:102
Alignment explanation
Indices: 26859843--26860034 Score: 237
Period size: 100 Copynumber: 1.9 Consensus size: 102
26859833 ATTAATGATA
* * *
26859843 CCGGTTCACATCGTAGCCTGCACATAGTACTACACATGTGACCATCACTATCCGATACACGTAGT
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGT
* * * * *
26859908 ATCCTGCACATCGTACTACACACGTGATCGAAGTTAT
66 AGCATGCACATAGTACTACACACGTGATCCAACTTAT
* * * *
26859945 CCGGTACTCATAGTAGCCTGCACATAGTAC-ACACATGCGACCTATCA-T-TCTGGCACACGTAG
1 CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACC-ATCACTATCCGACACACGTAG
*
26860007 TAGCATGCACATAGTACTACACATGTGA
65 TAGCATGCACATAGTACTACACACGTGA
26860035 CCATCACTTT
Statistics
Matches: 78, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
100 35 0.45
101 12 0.15
102 31 0.40
ACGTcount: A:0.29, C:0.29, G:0.18, T:0.24
Consensus pattern (102 bp):
CCGGTTCACATAGTAGCCTGCACATAGTACTACACATGCGACCATCACTATCCGACACACGTAGT
AGCATGCACATAGTACTACACACGTGATCCAACTTAT
Found at i:26869701 original size:41 final size:41
Alignment explanation
Indices: 26869651--26869732 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
26869641 GGCCATATTT
26869651 ACATTAAAATTCCCAAATAAAATTTTTAAAATCATAATTAA
1 ACATTAAAATTCCCAAATAAAATTTTTAAAATCATAATTAA
26869692 ACATTAAAATTCCCAAATAAAATTTTTAAAATCATAATTAA
1 ACATTAAAATTCCCAAATAAAATTTTTAAAATCATAATTAA
26869733 GTACGAAACA
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.54, C:0.12, G:0.00, T:0.34
Consensus pattern (41 bp):
ACATTAAAATTCCCAAATAAAATTTTTAAAATCATAATTAA
Found at i:26872565 original size:24 final size:22
Alignment explanation
Indices: 26872522--26872565 Score: 52
Period size: 22 Copynumber: 1.9 Consensus size: 22
26872512 TAGTCATATA
* *
26872522 ACATGTATATTACAGATTTATT
1 ACATGTATATAACACATTTATT
26872544 ACATGTATATAATCACACTTTA
1 ACATGTATATAA-CACA-TTTA
26872566 CATAATAATC
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 11 0.61
23 3 0.17
24 4 0.22
ACGTcount: A:0.39, C:0.14, G:0.07, T:0.41
Consensus pattern (22 bp):
ACATGTATATAACACATTTATT
Found at i:26885194 original size:17 final size:17
Alignment explanation
Indices: 26885169--26885216 Score: 53
Period size: 17 Copynumber: 2.9 Consensus size: 17
26885159 GATAAGTATA
*
26885169 CATTATCATTGCATTTT
1 CATTGTCATTGCATTTT
* *
26885186 CATTGTCATTACATATT
1 CATTGTCATTGCATTTT
*
26885203 CA-TGTCAATGCATT
1 CATTGTCATTGCATT
26885217 GGGGACAATG
Statistics
Matches: 25, Mismatches: 6, Indels: 1
0.78 0.19 0.03
Matches are distributed among these distances:
16 9 0.36
17 16 0.64
ACGTcount: A:0.27, C:0.19, G:0.08, T:0.46
Consensus pattern (17 bp):
CATTGTCATTGCATTTT
Found at i:26893526 original size:30 final size:29
Alignment explanation
Indices: 26893469--26893528 Score: 77
Period size: 30 Copynumber: 2.0 Consensus size: 29
26893459 CCTTATAAGC
26893469 TTTGATTTTTATATTTTCATGATCATTCAT
1 TTTGATTTTTATATTTTCATGA-CATTCAT
*
26893499 TTTGATTTTTTATCTGTTTCATG-CATTCAT
1 TTTGA-TTTTTATAT-TTTCATGACATTCAT
26893529 ATAGCTTTTA
Statistics
Matches: 27, Mismatches: 1, Indels: 4
0.84 0.03 0.12
Matches are distributed among these distances:
30 12 0.44
31 8 0.30
32 7 0.26
ACGTcount: A:0.20, C:0.12, G:0.08, T:0.60
Consensus pattern (29 bp):
TTTGATTTTTATATTTTCATGACATTCAT
Found at i:26907624 original size:20 final size:20
Alignment explanation
Indices: 26907599--26907637 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
26907589 GTCGACCAAA
*
26907599 CATTGATTGATGTTGACCAC
1 CATTGACTGATGTTGACCAC
*
26907619 CATTGACTGGTGTTGACCA
1 CATTGACTGATGTTGACCA
26907638 TAATTTCCTT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.23, C:0.21, G:0.23, T:0.33
Consensus pattern (20 bp):
CATTGACTGATGTTGACCAC
Found at i:26907834 original size:21 final size:21
Alignment explanation
Indices: 26907810--26907881 Score: 65
Period size: 21 Copynumber: 3.3 Consensus size: 21
26907800 GATTATAAGT
26907810 TAAAAAAATAAAAATATTATA
1 TAAAAAAATAAAAATATTATA
*
26907831 T-AAAAAATGAAAAAAATTAATA
1 TAAAAAAAT-AAAAATATT-ATA
* * *
26907853 TATATATAAATTAAAATATTACA
1 TA-A-AAAAATAAAAATATTATA
26907876 TAAAAA
1 TAAAAA
26907882 TGTTCACCAA
Statistics
Matches: 40, Mismatches: 6, Indels: 10
0.71 0.11 0.18
Matches are distributed among these distances:
20 7 0.17
21 11 0.28
22 5 0.12
23 4 0.10
24 8 0.20
25 5 0.12
ACGTcount: A:0.68, C:0.01, G:0.01, T:0.29
Consensus pattern (21 bp):
TAAAAAAATAAAAATATTATA
Found at i:26907977 original size:32 final size:36
Alignment explanation
Indices: 26907892--26907977 Score: 83
Period size: 32 Copynumber: 2.4 Consensus size: 36
26907882 TGTTCACCAA
*
26907892 AAAAATATTATATCAAAATTGTAAAGTTTTAAAAAAATT
1 AAAAATATTATAT--AAATTATAAAGTTTT-AAAAAATT
* *
26907931 ATAAATA-TACATAAA-TATAAA-TTTT-AAAAA-T
1 AAAAATATTATATAAATTATAAAGTTTTAAAAAATT
26907962 AAAAATATTATATAAA
1 AAAAATATTATATAAA
26907978 AATTTAAAAT
Statistics
Matches: 41, Mismatches: 5, Indels: 9
0.75 0.09 0.16
Matches are distributed among these distances:
31 7 0.17
32 12 0.29
34 4 0.10
35 5 0.12
36 3 0.07
38 4 0.10
39 6 0.15
ACGTcount: A:0.60, C:0.02, G:0.02, T:0.35
Consensus pattern (36 bp):
AAAAATATTATATAAATTATAAAGTTTTAAAAAATT
Found at i:26908298 original size:58 final size:59
Alignment explanation
Indices: 26908197--26908321 Score: 184
Period size: 58 Copynumber: 2.2 Consensus size: 59
26908187 AAATTTTCAA
*
26908197 TTTT-TATAATATTTTTATTTTTTAAAATTTATATTGATATATTTTAGAATTTTTAAAT
1 TTTTATATAATATTTTTATTTTTTAAAATTTATATTGATATATTTTAGAATTTTGAAAT
* *
26908255 TTTTATATAATATTTTTATTTTTT-AAATTTATAATT-ATATATTTTATAATTTTGAAGT
1 TTTTATATAATATTTTTATTTTTTAAAATTTAT-ATTGATATATTTTAGAATTTTGAAAT
*
26908313 ATTTATATA
1 TTTTATATA
26908322 TTATATATGA
Statistics
Matches: 61, Mismatches: 4, Indels: 4
0.88 0.06 0.06
Matches are distributed among these distances:
58 39 0.64
59 22 0.36
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (59 bp):
TTTTATATAATATTTTTATTTTTTAAAATTTATATTGATATATTTTAGAATTTTGAAAT
Found at i:26908336 original size:58 final size:59
Alignment explanation
Indices: 26908196--26908338 Score: 164
Period size: 58 Copynumber: 2.4 Consensus size: 59
26908186 CAAATTTTCA
* * * *
26908196 ATTTTTATAATATTTTTATTTTTTAAAATTTATATTGATATATTTTAGAATTTTTAAAT
1 ATTTATATAATATTATGATTTTTTAAAATTTATATTGATATATTTTAGAATTTTGAAAT
* * * * *
26908255 TTTTATATAATATTTTTATTTTTT-AAATTTATAATT-ATATATTTTATAATTTTGAAGT
1 ATTTATATAATATTATGATTTTTTAAAATTTAT-ATTGATATATTTTAGAATTTTGAAAT
*
26908313 ATTTATATATTATATATGATTTTTTA
1 ATTTATATAATAT-TATGATTTTTTA
26908339 CATTTTTATA
Statistics
Matches: 72, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
58 38 0.53
59 34 0.47
ACGTcount: A:0.35, C:0.00, G:0.03, T:0.62
Consensus pattern (59 bp):
ATTTATATAATATTATGATTTTTTAAAATTTATATTGATATATTTTAGAATTTTGAAAT
Found at i:26909666 original size:33 final size:33
Alignment explanation
Indices: 26909608--26909671 Score: 94
Period size: 33 Copynumber: 1.9 Consensus size: 33
26909598 AGTTCAGTTG
* *
26909608 GGCCTTAGCCCATTATAGTATCAGTATCAGTGT
1 GGCCTTAGCCCATTACAGTATCAGTAACAGTGT
26909641 GGCCTTAGCCCATTACAGTGA-CAGTAACAGT
1 GGCCTTAGCCCATTACAGT-ATCAGTAACAGT
26909672 TCAGACATGC
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
33 27 0.96
34 1 0.04
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.28
Consensus pattern (33 bp):
GGCCTTAGCCCATTACAGTATCAGTAACAGTGT
Found at i:26912463 original size:7 final size:7
Alignment explanation
Indices: 26912447--26912476 Score: 51
Period size: 7 Copynumber: 4.3 Consensus size: 7
26912437 TTCTTTGTAA
26912447 TTTCAGT
1 TTTCAGT
*
26912454 TTTTAGT
1 TTTCAGT
26912461 TTTCAGT
1 TTTCAGT
26912468 TTTCAGT
1 TTTCAGT
26912475 TT
1 TT
26912477 ATCCCTTTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
7 21 1.00
ACGTcount: A:0.13, C:0.10, G:0.13, T:0.63
Consensus pattern (7 bp):
TTTCAGT
Done.