Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr5
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: 65570391
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 1216948 characters in sequence are not A, C, G, or T
File 177 of 203
Found at i:56298256 original size:14 final size:14
Alignment explanation
Indices: 56298233--56298264 Score: 55
Period size: 14 Copynumber: 2.3 Consensus size: 14
56298223 GACGATTTTC
*
56298233 AAAAGTAAAAGAAA
1 AAAAGAAAAAGAAA
56298247 AAAAGAAAAAGAAA
1 AAAAGAAAAAGAAA
56298261 AAAA
1 AAAA
56298265 AACTTGTTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 17 1.00
ACGTcount: A:0.84, C:0.00, G:0.12, T:0.03
Consensus pattern (14 bp):
AAAAGAAAAAGAAA
Found at i:56315651 original size:12 final size:12
Alignment explanation
Indices: 56315631--56315663 Score: 57
Period size: 12 Copynumber: 2.8 Consensus size: 12
56315621 AAACCTAATG
56315631 ATTGTAAAGCTA
1 ATTGTAAAGCTA
*
56315643 ATTGAAAAGCTA
1 ATTGTAAAGCTA
56315655 ATTGTAAAG
1 ATTGTAAAG
56315664 GTTAGTCCTT
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
12 19 1.00
ACGTcount: A:0.45, C:0.06, G:0.18, T:0.30
Consensus pattern (12 bp):
ATTGTAAAGCTA
Found at i:56317919 original size:19 final size:19
Alignment explanation
Indices: 56317876--56317912 Score: 74
Period size: 19 Copynumber: 1.9 Consensus size: 19
56317866 AATTGAGGAT
56317876 TAGAAATGAGATTAGAATG
1 TAGAAATGAGATTAGAATG
56317895 TAGAAATGAGATTAGAAT
1 TAGAAATGAGATTAGAAT
56317913 TTTGAAACTG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.24, T:0.27
Consensus pattern (19 bp):
TAGAAATGAGATTAGAATG
Found at i:56320174 original size:6 final size:6
Alignment explanation
Indices: 56320165--56320194 Score: 51
Period size: 6 Copynumber: 5.0 Consensus size: 6
56320155 GTGTGAATAT
*
56320165 GAATGC GAATGA GAATGC GAATGC GAATGC
1 GAATGC GAATGC GAATGC GAATGC GAATGC
56320195 TCAAGGGATG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.37, C:0.13, G:0.33, T:0.17
Consensus pattern (6 bp):
GAATGC
Found at i:56330573 original size:20 final size:20
Alignment explanation
Indices: 56330548--56330587 Score: 71
Period size: 20 Copynumber: 2.0 Consensus size: 20
56330538 CGTAAATTGA
*
56330548 TTTCTGTAAAATGTTTTACT
1 TTTCTGTAAAATGATTTACT
56330568 TTTCTGTAAAATGATTTACT
1 TTTCTGTAAAATGATTTACT
56330588 AGAAAATATT
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.28, C:0.10, G:0.10, T:0.53
Consensus pattern (20 bp):
TTTCTGTAAAATGATTTACT
Found at i:56349614 original size:28 final size:30
Alignment explanation
Indices: 56349560--56349615 Score: 71
Period size: 28 Copynumber: 1.9 Consensus size: 30
56349550 ATTTTTCCAT
* *
56349560 TGATGAATCTATGTGATTTTAGATGTTAAA
1 TGATGAATCTATGAGATATTAGATGTTAAA
*
56349590 TGATGAAT-T-TGAGATATTAGTTGTTA
1 TGATGAATCTATGAGATATTAGATGTTA
56349616 TTTAAAAGTA
Statistics
Matches: 23, Mismatches: 3, Indels: 2
0.82 0.11 0.07
Matches are distributed among these distances:
28 14 0.61
29 1 0.04
30 8 0.35
ACGTcount: A:0.32, C:0.02, G:0.21, T:0.45
Consensus pattern (30 bp):
TGATGAATCTATGAGATATTAGATGTTAAA
Found at i:56350207 original size:38 final size:37
Alignment explanation
Indices: 56350115--56350213 Score: 117
Period size: 37 Copynumber: 2.6 Consensus size: 37
56350105 AGAAATGCAG
* * *
56350115 TGATTTTGGGCTATGTGCCTTGCAGGCTTTGTATCGA
1 TGATTTTGGGCTATGTGCATAGCAGGCTTTGTACCGA
* * *
56350152 TGATTTTGGGATATGTGCATAGCAGGTTTTGTGCCGA
1 TGATTTTGGGCTATGTGCATAGCAGGCTTTGTACCGA
* *
56350189 TGTTATTTGGGCTATGTGCTTAGCA
1 TGAT-TTTGGGCTATGTGCATAGCA
56350214 AAATTTGTGC
Statistics
Matches: 52, Mismatches: 9, Indels: 1
0.84 0.15 0.02
Matches are distributed among these distances:
37 34 0.65
38 18 0.35
ACGTcount: A:0.16, C:0.13, G:0.30, T:0.40
Consensus pattern (37 bp):
TGATTTTGGGCTATGTGCATAGCAGGCTTTGTACCGA
Found at i:56350271 original size:75 final size:76
Alignment explanation
Indices: 56350165--56350346 Score: 181
Period size: 75 Copynumber: 2.4 Consensus size: 76
56350155 TTTTGGGATA
* * * * ** * * *
56350165 TGTGCATAGCAGGTTTTGTGCCGATGTTATTTGGGCTAT-GTGCTTAGCAAAATTTGTGCTGGTG
1 TGTGCCTAGCAGGCTTTGTGCTGGTCATATTTGGGCT-TCGTGCCTAGCAAAATTTATGCCGGTG
*
56350229 AT-TTCG-GCCTG
65 ATATTCGAG-CTC
* * **
56350240 TGTGCCTAGCAGGGTTTGTGTTGGTCATATTTGGGCTTCGTGCCTAGCAAGCTTTATGCCGGTGA
1 TGTGCCTAGCAGGCTTTGTGCTGGTCATATTTGGGCTTCGTGCCTAGCAAAATTTATGCCGGTGA
56350305 TATTCGAGCTC
66 TATTCGAGCTC
* *
56350316 TGTGCCTAGTAGGCTTTGTGCTGGTGATATT
1 TGTGCCTAGCAGGCTTTGTGCTGGTCATATT
56350347 CGAGCTCTAT
Statistics
Matches: 87, Mismatches: 17, Indels: 5
0.80 0.16 0.05
Matches are distributed among these distances:
74 1 0.01
75 52 0.60
76 33 0.38
77 1 0.01
ACGTcount: A:0.15, C:0.16, G:0.31, T:0.38
Consensus pattern (76 bp):
TGTGCCTAGCAGGCTTTGTGCTGGTCATATTTGGGCTTCGTGCCTAGCAAAATTTATGCCGGTGA
TATTCGAGCTC
Found at i:56350308 original size:38 final size:38
Alignment explanation
Indices: 56350279--56350365 Score: 120
Period size: 38 Copynumber: 2.3 Consensus size: 38
56350269 TTTGGGCTTC
56350279 GTGCCTAGCAAGCTTTATGCCGGTGATATTCGAGCTCT
1 GTGCCTAGCAAGCTTTATGCCGGTGATATTCGAGCTCT
* * * *
56350317 GTGCCTAGTAGGCTTTGTGCTGGTGATATTCGAGCTCT
1 GTGCCTAGCAAGCTTTATGCCGGTGATATTCGAGCTCT
* *
56350355 ATGGCTAGCAA
1 GTGCCTAGCAA
56350366 CCTTCGTGCA
Statistics
Matches: 41, Mismatches: 8, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
38 41 1.00
ACGTcount: A:0.18, C:0.21, G:0.29, T:0.32
Consensus pattern (38 bp):
GTGCCTAGCAAGCTTTATGCCGGTGATATTCGAGCTCT
Found at i:56350457 original size:41 final size:41
Alignment explanation
Indices: 56350367--56350473 Score: 106
Period size: 41 Copynumber: 2.6 Consensus size: 41
56350357 GGCTAGCAAC
* * * * *
56350367 CTTCGTGCAAGTGTATTATATCAGGCTTTGTGCTTAGTTGG
1 CTTCGTGCCAGTGTATTATATCAGGCTTCGAGCCTAGTAGG
* * * * *
56350408 CTTTGTGCCGGTGTGTTATATCAGGCTTCGAGCCTGGTAGT
1 CTTCGTGCCAGTGTATTATATCAGGCTTCGAGCCTAGTAGG
* *
56350449 CTTCGTGCCAATGTATTGTATCAGG
1 CTTCGTGCCAGTGTATTATATCAGG
56350474 TAAGTTGTAC
Statistics
Matches: 51, Mismatches: 15, Indels: 0
0.77 0.23 0.00
Matches are distributed among these distances:
41 51 1.00
ACGTcount: A:0.16, C:0.18, G:0.28, T:0.38
Consensus pattern (41 bp):
CTTCGTGCCAGTGTATTATATCAGGCTTCGAGCCTAGTAGG
Found at i:56357610 original size:41 final size:41
Alignment explanation
Indices: 56357565--56357648 Score: 123
Period size: 41 Copynumber: 2.0 Consensus size: 41
56357555 GATATTAAAC
** *
56357565 CAAGCTCTATGCCTAGCAGGCTTTGTGCCTGTGACTTATAT
1 CAAGCTCTATGCCTAGCAGGCTTCATGCCGGTGACTTATAT
* *
56357606 CAAGCTCTGTGCCTAGCAGGCTTCATGCCGGTGATTTATAT
1 CAAGCTCTATGCCTAGCAGGCTTCATGCCGGTGACTTATAT
56357647 CA
1 CA
56357649 GGTTCAGTAC
Statistics
Matches: 38, Mismatches: 5, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
41 38 1.00
ACGTcount: A:0.20, C:0.25, G:0.23, T:0.32
Consensus pattern (41 bp):
CAAGCTCTATGCCTAGCAGGCTTCATGCCGGTGACTTATAT
Found at i:56357667 original size:41 final size:41
Alignment explanation
Indices: 56357576--56357687 Score: 125
Period size: 41 Copynumber: 2.7 Consensus size: 41
56357566 AAGCTCTATG
* * * * *
56357576 CCTAGCAGGCTTTGTGCCTGTGACTTATATCAAGCTCTGTG
1 CCTAGCAGGCTTCGTGCCAGTGATTTATATCAAGCTCAGTA
* * * *
56357617 CCTAGCAGGCTTCATGCCGGTGATTTATATCAGGTTCAGTA
1 CCTAGCAGGCTTCGTGCCAGTGATTTATATCAAGCTCAGTA
* *
56357658 CCTAACAGGCTTCGTTCCAGTGATTTATAT
1 CCTAGCAGGCTTCGTGCCAGTGATTTATAT
56357688 TAGAATCTGT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
41 59 1.00
ACGTcount: A:0.21, C:0.23, G:0.22, T:0.34
Consensus pattern (41 bp):
CCTAGCAGGCTTCGTGCCAGTGATTTATATCAAGCTCAGTA
Found at i:56363543 original size:41 final size:41
Alignment explanation
Indices: 56363477--56363571 Score: 109
Period size: 41 Copynumber: 2.3 Consensus size: 41
56363467 GAGATAATAA
* * * **
56363477 ATCAGGCTCTGTACCTAGTAGGCTTCATGCCGGTGATTTAT
1 ATCAAGCTCTGTACCTAGCAAGCTTCATGCCAATGATTTAT
* *
56363518 ATCAAGCTCTGTGCCTAGCAAGCTTCGTGCCAATGATTTAT
1 ATCAAGCTCTGTACCTAGCAAGCTTCATGCCAATGATTTAT
* *
56363559 ATCAGGCTTTGTA
1 ATCAAGCTCTGTA
56363572 GAAAGCTTGG
Statistics
Matches: 44, Mismatches: 10, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
41 44 1.00
ACGTcount: A:0.22, C:0.22, G:0.22, T:0.34
Consensus pattern (41 bp):
ATCAAGCTCTGTACCTAGCAAGCTTCATGCCAATGATTTAT
Found at i:56363592 original size:37 final size:40
Alignment explanation
Indices: 56363498--56363597 Score: 107
Period size: 37 Copynumber: 2.5 Consensus size: 40
56363488 TACCTAGTAG
* * *
56363498 GCTTCATGCCGGTGATTTATATCAAGCTCTGTGCCTAGCAA
1 GCTTCGTGCCAGTGATTTATATCAAGCTCTGTG-CTAGAAA
* *
56363539 GCTTCGTGCCAATGATTTATATCAGGCT-T-TG-TAGAAA
1 GCTTCGTGCCAGTGATTTATATCAAGCTCTGTGCTAGAAA
* *
56363576 GCTTGGTGTCAGTGATTTATAT
1 GCTTCGTGCCAGTGATTTATAT
56363598 TAGCAAGCTT
Statistics
Matches: 51, Mismatches: 8, Indels: 4
0.81 0.13 0.06
Matches are distributed among these distances:
37 24 0.47
39 2 0.04
40 1 0.02
41 24 0.47
ACGTcount: A:0.23, C:0.18, G:0.23, T:0.36
Consensus pattern (40 bp):
GCTTCGTGCCAGTGATTTATATCAAGCTCTGTGCTAGAAA
Found at i:56368452 original size:21 final size:21
Alignment explanation
Indices: 56368396--56368452 Score: 62
Period size: 21 Copynumber: 2.7 Consensus size: 21
56368386 TGTGGGGGTA
* *
56368396 CACACGCCCATGTGAAGGAGG
1 CACATGCCCGTGTGAAGGAGG
*
56368417 CACATGCCCGGGTGAAGGGAGG
1 CACATGCCCGTGTGAA-GGAGG
*
56368439 CA-ATGGCCGTGTGA
1 CACATGCCCGTGTGA
56368453 CTATGACACA
Statistics
Matches: 30, Mismatches: 5, Indels: 2
0.81 0.14 0.05
Matches are distributed among these distances:
21 23 0.77
22 7 0.23
ACGTcount: A:0.25, C:0.25, G:0.39, T:0.12
Consensus pattern (21 bp):
CACATGCCCGTGTGAAGGAGG
Found at i:56372303 original size:24 final size:24
Alignment explanation
Indices: 56372250--56372303 Score: 65
Period size: 24 Copynumber: 2.2 Consensus size: 24
56372240 ATAATTCTTT
56372250 TTTTTCTTTTACATTATTTCTCTA
1 TTTTTCTTTTACATTATTTCTCTA
* * *
56372274 TCTTTCTTTTA-TTTATTTTTTCTA
1 TTTTTCTTTTACATTA-TTTCTCTA
56372298 TTTTTC
1 TTTTTC
56372304 CCTTTCTTCT
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
23 3 0.12
24 22 0.88
ACGTcount: A:0.13, C:0.15, G:0.00, T:0.72
Consensus pattern (24 bp):
TTTTTCTTTTACATTATTTCTCTA
Found at i:56372613 original size:20 final size:21
Alignment explanation
Indices: 56372588--56372633 Score: 60
Period size: 20 Copynumber: 2.2 Consensus size: 21
56372578 ATTGAATTTA
56372588 TTTTATCTTTT-TTTATAT-AT
1 TTTTAT-TTTTATTTATATGAT
*
56372608 TTTTATTTTTATTTGTATGAT
1 TTTTATTTTTATTTATATGAT
56372629 TTTTA
1 TTTTA
56372634 ATAAATTATT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
19 4 0.17
20 12 0.52
21 7 0.30
ACGTcount: A:0.20, C:0.02, G:0.04, T:0.74
Consensus pattern (21 bp):
TTTTATTTTTATTTATATGAT
Found at i:56372951 original size:29 final size:29
Alignment explanation
Indices: 56372918--56373008 Score: 77
Period size: 29 Copynumber: 3.3 Consensus size: 29
56372908 GAAACTATTG
*
56372918 AATTATCTTTTCTTTATCAATGTTGTTAA
1 AATTATCTTCTCTTTATCAATGTTGTTAA
* * * *
56372947 AATTATCATGTGTTTGA--AACTATTG----
1 AATTATCTTCTCTTT-ATCAA-TGTTGTTAA
56372972 AATTATCTTCTCTTTATCAATGTTGTTAA
1 AATTATCTTCTCTTTATCAATGTTGTTAA
56373001 AATTATCT
1 AATTATCT
56373009 CTTTATGTTA
Statistics
Matches: 46, Mismatches: 8, Indels: 16
0.66 0.11 0.23
Matches are distributed among these distances:
24 1 0.02
25 16 0.35
26 2 0.04
28 2 0.04
29 24 0.52
30 1 0.02
ACGTcount: A:0.30, C:0.11, G:0.09, T:0.51
Consensus pattern (29 bp):
AATTATCTTCTCTTTATCAATGTTGTTAA
Found at i:56372962 original size:54 final size:54
Alignment explanation
Indices: 56372898--56373007 Score: 211
Period size: 54 Copynumber: 2.0 Consensus size: 54
56372888 CAACACTTTC
*
56372898 TCATGTGTTTGAAACTATTGAATTATCTTTTCTTTATCAATGTTGTTAAAATTA
1 TCATGTGTTTGAAACTATTGAATTATCTTCTCTTTATCAATGTTGTTAAAATTA
56372952 TCATGTGTTTGAAACTATTGAATTATCTTCTCTTTATCAATGTTGTTAAAATTA
1 TCATGTGTTTGAAACTATTGAATTATCTTCTCTTTATCAATGTTGTTAAAATTA
56373006 TC
1 TC
56373008 TCTTTATGTT
Statistics
Matches: 55, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
54 55 1.00
ACGTcount: A:0.29, C:0.11, G:0.11, T:0.49
Consensus pattern (54 bp):
TCATGTGTTTGAAACTATTGAATTATCTTCTCTTTATCAATGTTGTTAAAATTA
Found at i:56387321 original size:43 final size:42
Alignment explanation
Indices: 56387241--56387366 Score: 110
Period size: 43 Copynumber: 3.0 Consensus size: 42
56387231 AAAACACATA
* * * * *
56387241 TATCACATA-CAATGCCATATCCTAGATATGGTTTTACAGGT
1 TATCACATATCGATGCCATATCCTAGACAGGGTCTTACACGT
*
56387282 TATCACATATCGATGCCACTATCCTGGACAGGGTCTTACACGT
1 TATCACATATCGATGCCA-TATCCTAGACAGGGTCTTACACGT
* * * * * * *
56387325 AATCTCATATCGGTCCCAATGTCCCAGACATGGTCTTACACG
1 TATCACATATCGATGCC-ATATCCTAGACAGGGTCTTACACG
56387367 AAATCACACC
Statistics
Matches: 68, Mismatches: 14, Indels: 4
0.79 0.16 0.05
Matches are distributed among these distances:
41 9 0.13
42 7 0.10
43 51 0.75
44 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.29
Consensus pattern (42 bp):
TATCACATATCGATGCCATATCCTAGACAGGGTCTTACACGT
Found at i:56400379 original size:24 final size:24
Alignment explanation
Indices: 56400335--56400387 Score: 63
Period size: 24 Copynumber: 2.2 Consensus size: 24
56400325 TTTTCGATTT
*
56400335 ATTTCAAACTTTCATATATATATC
1 ATTTCAAACTTTCATATATATATA
**
56400359 ATTTCAAACTTATTTTA-ATATATA
1 ATTTCAAACTT-TCATATATATATA
56400383 ATTTC
1 ATTTC
56400388 CCTTCTTCCA
Statistics
Matches: 25, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
24 22 0.88
25 3 0.12
ACGTcount: A:0.38, C:0.13, G:0.00, T:0.49
Consensus pattern (24 bp):
ATTTCAAACTTTCATATATATATA
Found at i:56405172 original size:40 final size:41
Alignment explanation
Indices: 56405116--56405221 Score: 137
Period size: 40 Copynumber: 2.6 Consensus size: 41
56405106 AGATCCGATC
* * *
56405116 TCAAAA-AAAAAAGAAGAAGAAGCAAAAGCAAAATC-AAGA
1 TCAAAATAAAAAAGAAGAAAAAGAAAAAGCAAAATCAAAAA
*
56405155 TCAAAATAAAAAAGAAGAAAAAGAAAAATCAAAATCAAAAA
1 TCAAAATAAAAAAGAAGAAAAAGAAAAAGCAAAATCAAAAA
*
56405196 TCAAAAT-AAAATGAAAGAAAAAGAAA
1 TCAAAATAAAAAAG-AAGAAAAAGAAA
56405222 GACGAAAAGA
Statistics
Matches: 59, Mismatches: 5, Indels: 4
0.87 0.07 0.06
Matches are distributed among these distances:
39 6 0.10
40 31 0.53
41 22 0.37
ACGTcount: A:0.73, C:0.08, G:0.11, T:0.08
Consensus pattern (41 bp):
TCAAAATAAAAAAGAAGAAAAAGAAAAAGCAAAATCAAAAA
Found at i:56405194 original size:13 final size:12
Alignment explanation
Indices: 56405173--56405206 Score: 50
Period size: 13 Copynumber: 2.8 Consensus size: 12
56405163 AAAAAGAAGA
*
56405173 AAAAGAAAAATC
1 AAAATAAAAATC
56405185 AAAATCAAAAATC
1 AAAAT-AAAAATC
56405198 AAAATAAAA
1 AAAATAAAA
56405207 TGAAAGAAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
12 8 0.40
13 12 0.60
ACGTcount: A:0.76, C:0.09, G:0.03, T:0.12
Consensus pattern (12 bp):
AAAATAAAAATC
Found at i:56407499 original size:44 final size:44
Alignment explanation
Indices: 56407422--56407704 Score: 205
Period size: 44 Copynumber: 6.2 Consensus size: 44
56407412 TCTCTAAGCA
* * *
56407422 ACAGTGGAGCAGATCGAAGCCAG-AATTCTTATCTCCTTGAGATT
1 ACAGCGGAGCAGATTGAAGCTAGTAA-TCTTATCTCCTTGAGATT
* * * *
56407466 ACAGCGGAGCAAATTGAAGCTAGTAATCCTATCTCCCTAAGATT
1 ACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCTTGAGATT
* * ** * **
56407510 ACAGTGGAGCGGATT-AAAATAAATGAA-CTTATCTCTCTAAAG-TT
1 ACAGCGGAGCAGATTGAAGCT-AGT-AATCTTATCTC-CTTGAGATT
* * *
56407554 ACAGTAGAGTAGATTGCATCAGATTGAAACTAGAAATCTTATCTCCTTGAGATT
1 AC---AGCG--GA--G---CAGATTGAAGCTAGTAATCTTATCTCCTTGAGATT
* *
56407608 ACAGCGAAGCAGATTGAAGCTAGAAATCTTATCTCCTTGAGATT
1 ACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCTTGAGATT
* * *
56407652 ATAGCGGAGCAGATTGAAGCTAGTAATCATATCTCCCTGAGATT
1 ACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCTTGAGATT
*
56407696 ACAGTGGAG
1 ACAGCGGAG
56407705 TGGATTAAAA
Statistics
Matches: 189, Mismatches: 33, Indels: 34
0.74 0.13 0.13
Matches are distributed among these distances:
43 3 0.02
44 139 0.74
45 8 0.04
47 4 0.02
49 3 0.02
51 4 0.02
53 6 0.03
54 18 0.10
55 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.21, T:0.28
Consensus pattern (44 bp):
ACAGCGGAGCAGATTGAAGCTAGTAATCTTATCTCCTTGAGATT
Found at i:56407984 original size:100 final size:100
Alignment explanation
Indices: 56407829--56408554 Score: 766
Period size: 100 Copynumber: 7.2 Consensus size: 100
56407819 CAAACGATGT
* * * * * *
56407829 AGTGGAACAGATTAAATCCACATCGGTGAATCTTGCTTCCCCAACATTGCGGTTAAAAAGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAA
* * *
56407894 AGCTACAACAACGAATCTTACCTCTCAAGCAGTGC
66 AGCTACAACAGCGAATCTTACCTCCCAGGCAGTGC
* * *
56407929 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTAC-CTCCCTGACATTGCAGTTAAAAAGATTA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTTAAAAGGATTA
*
56407993 AAGCTACAACAGCGAATCTTACCTCCCAGGCGGTGC
65 AAGCTACAACAGCGAATCTTACCTCCCAGGCAGTGC
* * * * * *
56408029 TGTGGAACAAATTAAACCCATAACGGTGAATCTTG-TCTCCCTGACATTGCAGTTGAAAA-GACT
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCC-GACATTGCAGTT-AAAAGGATT
* * * * * * * *
56408092 AAAGCCACACCGGCGAGTGTTACTTCCCTGGCAATGC
64 AAAGCTACAACAGCGAATCTTACCTCCCAGGCAGTGC
* * *
56408129 AGT-GAAGCAGATTAAAGCCATAACGGTAAATCTTGCTTTCCCAACATTGCAGTTAAAAGGATTA
1 AGTGGAA-CAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTA
* * * ** * *
56408193 AAG-TCATAAC-GACGAAACTCACTCTCTTAGCCAGTGT
65 AAGCT-ACAACAG-CGAATCTTAC-CTCCCAGGCAGTGC
* * * * *
56408230 AGTAGAGCAGATTAAAGCCACATCGGTGAATCTTACTTTCCCGACATTGCAGCTAAAAGGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAA
*
56408295 AGCTACAACAGCGAATCTTACTTCCCAGGCAGTGC
66 AGCTACAACAGCGAATCTTACCTCCCAGGCAGTGC
* * *
56408330 AGTGGAAAAGATTAAAGCCACAACAGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAA
* * * *
56408395 AG-TCACAAC-GATGAATCTCACTCTCTCAGCCAGTGC
66 AGCT-ACAACAG-CGAATCTTAC-CTCCCAGGCAGTGC
* * * * *
56408431 AGTAGAGCAGATTAAAGCCACATCAGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGGATTAA
1 AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAA
* * *
56408496 AGCTACAACAGTGAATCTTACTTCCTAGGCAGTGC
66 AGCTACAACAGCGAATCTTACCTCCCAGGCAGTGC
* *
56408531 AGTGGAACAGATTGAAGCTACAAC
1 AGTGGAACAGATTAAAGCCACAAC
56408555 AGCAAATCTC
Statistics
Matches: 518, Mismatches: 91, Indels: 34
0.81 0.14 0.05
Matches are distributed among these distances:
99 13 0.03
100 328 0.63
101 171 0.33
102 6 0.01
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.24
Consensus pattern (100 bp):
AGTGGAACAGATTAAAGCCACAACGGTGAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAA
AGCTACAACAGCGAATCTTACCTCCCAGGCAGTGC
Found at i:56408333 original size:201 final size:201
Alignment explanation
Indices: 56407826--56408586 Score: 881
Period size: 201 Copynumber: 3.8 Consensus size: 201
56407816 TGCCAAACGA
* * * * * * *
56407826 TGTAGTGGAACAGATTAAATCCACATCGGTGAATCTTGCTTCCCCAACATTGCGGTTAAAAAGAT
1 TGTAGTAGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGGAT
* * * *
56407891 TAAAGCTACAACAACGAATCTTACCTCTCAAGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
66 TAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
* * * * *
56407956 GAATCTTAC-CTCCCTGACATTGCAGTTAAAAAGATTAAAG-CTACAAC-AGCGAATCTTAC-CT
131 AAATCTTGCTTTCCC-GACATTGCAGTTAAAAGGATTAAAGTC-ACAACGA-CGAATCTCACTCT
* * *
56408017 CCCAGGCGG
193 CTCAGCCAG
* * * * * * *
56408026 TGCT-GTGGAACAAATTAAACCCATAACGGTGAATCTTG-TCTCCCTGACATTGCAGTTGAAAA-
1 TG-TAGTAGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCC-GACATTGCAGCT-AAAAG
* * * * * * * * *
56408088 GACTAAAGCCACACCGGCGAGTGTTACTTCCCTGGCAATGCAGT-GAAGCAGATTAAAGCCATAA
63 GATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAA-CAGATTAAAGCCACAA
* * *
56408152 CGGTAAATCTTGCTTTCCCAACATTGCAGTTAAAAGGATTAAAGTCATAACGACGAAACTCACTC
127 CGGTAAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACAACGACGAATCTCACTC
*
56408217 TCTTAGCCAG
192 TCTCAGCCAG
* *
56408227 TGTAGTAGAGCAGATTAAAGCCACATCGGTGAATCTTACTTTCCCGACATTGCAGCTAAAAGGAT
1 TGTAGTAGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGGAT
* *
56408292 TAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAAAAGATTAAAGCCACAACAGT
66 TAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
*
56408357 AAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACAACGATGAATCTCACTCTCTC
131 AAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACAACGACGAATCTCACTCTCTC
56408422 AGCCAG
196 AGCCAG
* * *
56408428 TGCAGTAGAGCAGATTAAAGCCACATCAGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGGAT
1 TGTAGTAGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGGAT
* * * * * *
56408493 TAAAGCTACAACAGTGAATCTTACTTCCTAGGCAGTGCAGTGGAACAGATTGAAGCTACAACAGC
66 TAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
** * **
56408558 AAATCTCACTTCCCCGACATCACAGTTAA
131 AAATCTTGCTTTCCCGACATTGCAGTTAA
56408587 GCAGATTAAG
Statistics
Matches: 477, Mismatches: 72, Indels: 23
0.83 0.13 0.04
Matches are distributed among these distances:
199 7 0.01
200 140 0.29
201 322 0.68
202 8 0.02
ACGTcount: A:0.34, C:0.24, G:0.19, T:0.24
Consensus pattern (201 bp):
TGTAGTAGAACAGATTAAAGCCACATCGGTGAATCTTGCTTTCCCGACATTGCAGCTAAAAGGAT
TAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGGAACAGATTAAAGCCACAACGGT
AAATCTTGCTTTCCCGACATTGCAGTTAAAAGGATTAAAGTCACAACGACGAATCTCACTCTCTC
AGCCAG
Found at i:56408549 original size:50 final size:48
Alignment explanation
Indices: 56407884--56408570 Score: 276
Period size: 50 Copynumber: 13.7 Consensus size: 48
56407874 ATTGCGGTTA
** *
56407884 AAAAGATTAAAGCTACAACAACGAATCTTACCTCTCA-AGCAGTGCAGTGG
1 AAAAGATTAAAGCTACAACAGTGAATCTTACTTC-CAGA-CAGTGCAGT-G
* * * * * * *
56407934 AACAGATTAAAGCCACAACGGTGAATCTTACCTCCCTGACATTGCAGTTA
1 AAAAGATTAAAGCTACAACAGTGAATCTTA-CTTCCAGACAGTGCAG-TG
* * * * *
56407984 AAAAGATTAAAGCTACAACAGCGAATCTTACCTCCCAGGCGGTGCTGTGG
1 AAAAGATTAAAGCTACAACAGTGAATCTTA-CTTCCAGACAGTGCAGT-G
* * * * * * * *
56408034 AACAA-ATTAAACCCATAACGGTGAATCTTGTCTCCCTGACATTGCAGTTG
1 AA-AAGATTAAAGCTACAACAGTGAATCTT-ACTTCCAGACAGTGCAG-TG
* * * * * * * * * *
56408084 AAAAGACTAAAGCCACACCGGCGAGTGTTACTTCCCTGGCAATGCAGTG
1 AAAAGATTAAAGCTACAACAGTGAATCTTACTT-CCAGACAGTGCAGTG
* * * * * * * *
56408133 AAGCAGATTAAAGCCATAACGGTAAATCTTGCTTTCCCA-ACATTGCAGTT
1 AA-AAGATTAAAGCTACAACAGTGAATCTTAC-TT-CCAGACAGTGCAGTG
* * * * * * *
56408183 AAAAGGATTAAAG-TCATAAC-GACGAAACTCACTCTCTTAGCCAGTGTAGTAG
1 AAAA-GATTAAAGCT-ACAACAG-TGAATCTTACT-TC-CAGACAGTGCAGT-G
** * * * * *
56408235 AGCAGATTAAAGCCACATCGGTGAATCTTACTTTCCCGACATTGCAGCT-
1 AAAAGATTAAAGCTACAACAGTGAATCTTAC-TTCCAGACAGTGCAG-TG
* *
56408284 AAAAGGATTAAAGCTACAACAGCGAATCTTACTTCCCAGGCAGTGCAGTGG
1 AAAA-GATTAAAGCTACAACAGTGAATCTTACTT-CCAGACAGTGCAGT-G
* * * * * *
56408335 AAAAGATTAAAGCCACAACAGTAAATCTTGCTTTCCCGACATTGCAGTT
1 AAAAGATTAAAGCTACAACAGTGAATCTTAC-TTCCAGACAGTGCAGTG
* *
56408384 AAAAGGATTAAAG-TCACAAC-GATGAATCTCACTCTCTCAGCCAGTGCAGTAG
1 AAAA-GATTAAAGCT-ACAACAG-TGAATCTTACT-TC-CAGACAGTGCAGT-G
** * * * * *
56408436 AGCAGATTAAAGCCACATCAGTGAATCTTGCTTTCCCGACATTGCAGCT-
1 AAAAGATTAAAGCTACAACAGTGAATCTTAC-TTCCAGACAGTGCAG-TG
*
56408485 AAAAGGATTAAAGCTACAACAGTGAATCTTACTTCCTAGGCAGTGCAGTGG
1 AAAA-GATTAAAGCTACAACAGTGAATCTTACTTCC-AGACAGTGCAGT-G
* * ** *
56408536 AACAGATTGAAGCTACAACAGCAAATCTCACTTCC
1 AAAAGATTAAAGCTACAACAGTGAATCTTACTTCC
56408571 CCGACATCAC
Statistics
Matches: 469, Mismatches: 127, Indels: 82
0.69 0.19 0.12
Matches are distributed among these distances:
49 31 0.07
50 348 0.74
51 82 0.17
52 8 0.02
ACGTcount: A:0.34, C:0.23, G:0.19, T:0.23
Consensus pattern (48 bp):
AAAAGATTAAAGCTACAACAGTGAATCTTACTTCCAGACAGTGCAGTG
Found at i:56412465 original size:43 final size:43
Alignment explanation
Indices: 56412375--56412493 Score: 125
Period size: 43 Copynumber: 2.8 Consensus size: 43
56412365 CTTACAGAAA
** ** *** *
56412375 AAAACGCCGCTAAAGATCATGTTCTTTTCCGGTGCTTTTTCAT
1 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTTGGAAG
56412418 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTTGGAAG
1 AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTTGGAAG
*
56412461 AAAACGCCTCTAAA-AGT-AGTGTTCTTTAGCGGC
1 AAAACGCCGCTAAAGA-TCA-TGTTCTTTAGCGGC
56412494 GCTTGTTTCA
Statistics
Matches: 65, Mismatches: 9, Indels: 4
0.83 0.12 0.05
Matches are distributed among these distances:
42 2 0.03
43 63 0.97
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (43 bp):
AAAACGCCGCTAAAGATCATGTTCTTTAGCGGCACTTTGGAAG
Found at i:56412956 original size:21 final size:21
Alignment explanation
Indices: 56412932--56413000 Score: 102
Period size: 21 Copynumber: 3.3 Consensus size: 21
56412922 GCTTCTATCG
*
56412932 CTGCTTCTCTCGCTGCGGCCT
1 CTGCTTCTCTCGCTGCAGCCT
*
56412953 CTGCTTCTCTCGCTGTAGCCT
1 CTGCTTCTCTCGCTGCAGCCT
* *
56412974 CTGCTTCCCTCGCTGCCGCCT
1 CTGCTTCTCTCGCTGCAGCCT
56412995 CTGCTT
1 CTGCTT
56413001 TAAGTTGTTG
Statistics
Matches: 43, Mismatches: 5, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 43 1.00
ACGTcount: A:0.01, C:0.43, G:0.20, T:0.35
Consensus pattern (21 bp):
CTGCTTCTCTCGCTGCAGCCT
Found at i:56415047 original size:9 final size:9
Alignment explanation
Indices: 56415033--56415283 Score: 158
Period size: 9 Copynumber: 29.8 Consensus size: 9
56415023 AAGTTATTTA
56415033 TTATGTAAG
1 TTATGTAAG
56415042 TTATGTAAG
1 TTATGTAAG
*
56415051 TTGTGTAAG
1 TTATGTAAG
56415060 TTATGTAAG
1 TTATGTAAG
* *
56415069 CTGTGTAAG
1 TTATGTAAG
**
56415078 TTGCGT-A-
1 TTATGTAAG
* *
56415085 TTATGAAAC
1 TTATGTAAG
56415094 TTATGTAAG
1 TTATGTAAG
*
56415103 TTGTGT-A-
1 TTATGTAAG
**
56415110 TTAAATAAG
1 TTATGTAAG
*
56415119 TTATGTCAG
1 TTATGTAAG
*
56415128 TTCTGT-A-
1 TTATGTAAG
* *
56415135 TTATGAAAC
1 TTATGTAAG
56415144 TTATGTAAG
1 TTATGTAAG
*
56415153 TTATGT--C
1 TTATGTAAG
56415160 TTATGTAAG
1 TTATGTAAG
*
56415169 TTATGTAAA
1 TTATGTAAG
*
56415178 ATATGT-A-
1 TTATGTAAG
56415185 TTATGTAAG
1 TTATGTAAG
*
56415194 TTATGTCAG
1 TTATGTAAG
*
56415203 TTGTGT-A-
1 TTATGTAAG
*
56415210 TTATGTAAA
1 TTATGTAAG
56415219 TTATGT-A-
1 TTATGTAAG
56415226 TTATGTAAG
1 TTATGTAAG
*
56415235 TTATGTAAT
1 TTATGTAAG
*
56415244 TTGTGT-A-
1 TTATGTAAG
*
56415251 TTATGTAAC
1 TTATGTAAG
* *
56415260 TTATTTAAT
1 TTATGTAAG
56415269 TTATGTAAG
1 TTATGTAAG
56415278 -TATGTA
1 TTATGTA
56415284 TTATTATGTA
Statistics
Matches: 188, Mismatches: 38, Indels: 33
0.73 0.15 0.13
Matches are distributed among these distances:
7 37 0.20
8 20 0.11
9 131 0.70
ACGTcount: A:0.31, C:0.04, G:0.19, T:0.46
Consensus pattern (9 bp):
TTATGTAAG
Found at i:56415051 original size:25 final size:25
Alignment explanation
Indices: 56415022--56415330 Score: 216
Period size: 25 Copynumber: 12.2 Consensus size: 25
56415012 GATTTAGGAA
* *
56415022 TAAGTTATTTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGTAAGTTATG
* *
56415047 TAAGTTGTGTAAGTTATGTAAGCTGTG
1 TAAGTTGTGT-A-TTATGTAAGTTATG
* * *
56415074 TAAGTTGCGTATTATGAAACTTATG
1 TAAGTTGTGTATTATGTAAGTTATG
**
56415099 TAAGTTGTGTATTAAATAAGTTATG
1 TAAGTTGTGTATTATGTAAGTTATG
* * * *
56415124 TCAGTTCTGTATTATGAAACTTATG
1 TAAGTTGTGTATTATGTAAGTTATG
* *
56415149 TAAGTTATGTCTTATGTAAGTTATG
1 TAAGTTGTGTATTATGTAAGTTATG
** *
56415174 TAAAATATGTATTATGTAAGTTATG
1 TAAGTTGTGTATTATGTAAGTTATG
* *
56415199 TCAGTTGTGTATTATGTAAATTATG
1 TAAGTTGTGTATTATGTAAGTTATG
* * *
56415224 T-A-TTATGTAAGTTATGTAATTTGTG
1 TAAGTTGTGT-A-TTATGTAAGTTATG
* * *
56415249 T-A-TTATGTAACTTATTTAATTTATG
1 TAAGTTGTGT-A-TTATGTAAGTTATG
* *
56415274 TAAGTATGTATTATTATGTAATTTAT-
1 TAAGT-TGT-GTATTATGTAAGTTATG
* * *
56415300 TATGTAG-GATATTATCTAAGTTATG
1 TAAGTTGTG-TATTATGTAAGTTATG
56415325 TAAGTT
1 TAAGTT
56415331 TTTTTTTGGT
Statistics
Matches: 225, Mismatches: 49, Indels: 20
0.77 0.17 0.07
Matches are distributed among these distances:
23 5 0.02
24 15 0.07
25 160 0.71
26 7 0.03
27 34 0.15
28 3 0.01
29 1 0.00
ACGTcount: A:0.31, C:0.03, G:0.18, T:0.47
Consensus pattern (25 bp):
TAAGTTGTGTATTATGTAAGTTATG
Found at i:56415162 original size:16 final size:16
Alignment explanation
Indices: 56415144--56415241 Score: 101
Period size: 16 Copynumber: 6.0 Consensus size: 16
56415134 ATTATGAAAC
*
56415144 TTATGTAAGTTATGTC
1 TTATGTAAGTTATGTA
56415160 TTATGTAAGTTATGTAAA
1 TTATGTAAGTTATGT--A
*
56415178 ATATGT-A-TTATGTAA
1 TTATGTAAGTTATGT-A
* *
56415193 GTTATGTCAGTTGTGTA
1 -TTATGTAAGTTATGTA
*
56415210 TTATGTAAATTATGTA
1 TTATGTAAGTTATGTA
56415226 TTATGTAAGTTATGTA
1 TTATGTAAGTTATGTA
56415242 ATTTGTGTAT
Statistics
Matches: 69, Mismatches: 8, Indels: 10
0.79 0.09 0.11
Matches are distributed among these distances:
15 2 0.03
16 54 0.78
17 3 0.04
18 10 0.14
ACGTcount: A:0.32, C:0.02, G:0.18, T:0.48
Consensus pattern (16 bp):
TTATGTAAGTTATGTA
Found at i:56415214 original size:41 final size:40
Alignment explanation
Indices: 56415144--56415258 Score: 160
Period size: 41 Copynumber: 2.8 Consensus size: 40
56415134 ATTATGAAAC
*
56415144 TTATGTAAGTTATGTC-TTATGTAAGTTATGTAAAATATGTA
1 TTATGTAAGTTATGTCATTGTGT-A-TTATGTAAAATATGTA
*
56415185 TTATGTAAGTTATGTCAGTTGTGTATTATGTAAATTATGTA
1 TTATGTAAGTTATGTCA-TTGTGTATTATGTAAAATATGTA
*
56415226 TTATGTAAGTTATGTAATTTGTGTATTATGTAA
1 TTATGTAAGTTATGTCA-TTGTGTATTATGTAA
56415259 CTTATTTAAT
Statistics
Matches: 68, Mismatches: 4, Indels: 4
0.89 0.05 0.05
Matches are distributed among these distances:
41 62 0.91
42 1 0.01
43 5 0.07
ACGTcount: A:0.31, C:0.02, G:0.18, T:0.49
Consensus pattern (40 bp):
TTATGTAAGTTATGTCATTGTGTATTATGTAAAATATGTA
Found at i:56415420 original size:94 final size:92
Alignment explanation
Indices: 56415218--56415388 Score: 247
Period size: 93 Copynumber: 1.8 Consensus size: 92
56415208 TATTATGTAA
*
56415218 ATTATGTATTATGTAAGTTATGTAATTTGTGTATTATGTAACTTATTTAATTTATGTAAGTATGT
1 ATTATGTATTATGTAAGTTATGTAATTTGTGTATCATGTAACTTATTTAATTTATGTAAGTATGT
56415283 ATTATTATGTAATTTATTATGTAGGAT
66 ATTATTATGTAATTTATTATGTAGGAT
* **
56415310 ATTATCTAAGTTATGTAAGTT-T-TTTTTTGGTGTATCATGTAACTTATTTAATTTATGTACAGT
1 ATTATGT-A-TTATGTAAGTTATGTAATTT-GTGTATCATGTAACTTATTTAATTTATGTA-AGT
*
56415373 ATGTGTTATTATGTAA
62 ATGTATTATTATGTAA
56415389 GTTCTTTATT
Statistics
Matches: 70, Mismatches: 5, Indels: 6
0.86 0.06 0.07
Matches are distributed among these distances:
92 10 0.14
93 31 0.44
94 29 0.41
ACGTcount: A:0.30, C:0.03, G:0.15, T:0.52
Consensus pattern (92 bp):
ATTATGTATTATGTAAGTTATGTAATTTGTGTATCATGTAACTTATTTAATTTATGTAAGTATGT
ATTATTATGTAATTTATTATGTAGGAT
Found at i:56415620 original size:15 final size:15
Alignment explanation
Indices: 56415600--56415632 Score: 57
Period size: 15 Copynumber: 2.2 Consensus size: 15
56415590 ATAAAATTTT
*
56415600 ATAAATTTAATAGTA
1 ATAAATTTAATACTA
56415615 ATAAATTTAATACTA
1 ATAAATTTAATACTA
56415630 ATA
1 ATA
56415633 TAGAAACCTT
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:0.55, C:0.03, G:0.03, T:0.39
Consensus pattern (15 bp):
ATAAATTTAATACTA
Found at i:56416855 original size:40 final size:39
Alignment explanation
Indices: 56416810--56416888 Score: 113
Period size: 39 Copynumber: 2.0 Consensus size: 39
56416800 TGGGGATTTA
* * *
56416810 GGGAAATTAAATCGGGGAAACTGGGGGAATAGGAATTGGG
1 GGGAAATGAAATCGGGG-AACTGGGGGAATACGAAATGGG
*
56416850 GGGAAATGAAATCGGGGAATTGGGGGAATACGAAATGGG
1 GGGAAATGAAATCGGGGAACTGGGGGAATACGAAATGGG
56416889 AAATTAGGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 1
0.88 0.10 0.03
Matches are distributed among these distances:
39 19 0.54
40 16 0.46
ACGTcount: A:0.35, C:0.05, G:0.43, T:0.16
Consensus pattern (39 bp):
GGGAAATGAAATCGGGGAACTGGGGGAATACGAAATGGG
Found at i:56416884 original size:24 final size:23
Alignment explanation
Indices: 56416841--56416893 Score: 63
Period size: 23 Copynumber: 2.3 Consensus size: 23
56416831 TGGGGGAATA
*
56416841 GGAATTGGGGGGAAATGAAATCGG
1 GGAATTGGGGGGAAACGAAAT-GG
56416865 GGAATT-GGGGGAATACGAAATGG
1 GGAATTGGGGGGAA-ACGAAATGG
*
56416888 GAAATT
1 GGAATT
56416894 AGGGAATGAA
Statistics
Matches: 26, Mismatches: 2, Indels: 3
0.84 0.06 0.10
Matches are distributed among these distances:
23 14 0.54
24 12 0.46
ACGTcount: A:0.36, C:0.04, G:0.42, T:0.19
Consensus pattern (23 bp):
GGAATTGGGGGGAAACGAAATGG
Found at i:56418538 original size:266 final size:266
Alignment explanation
Indices: 56418052--56418852 Score: 1357
Period size: 259 Copynumber: 3.0 Consensus size: 266
56418042 GTATTTTGCT
*
56418052 TTTTTGTGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
56418117 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
* *
56418182 ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGATCAAGCGCCGCTAAAGCTATTCTGTAA
131 ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCTAAAGCTATTCTTTAA
*
56418247 CGGCGTTTTCTAGTAAGCTCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
196 CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
56418312 AAGATA
261 AAGATA
* *
56418318 TTTTTGCGGTGTTTTAACGTCAGCGTCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
* * * * *
56418383 TTGGTTTAGATATTTTGCAGCGTTTTCCTATAGGCGCCACTGAATGTAACATAGCTTAAGACCAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
* *
56418448 ACACTGAGTTTTGTTAAGATACGTTGCGGCACTTTGGCTCAAGCGCCGCTAAAGCTATTCTTTAA
131 ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCTAAAGCTATTCTTTAA
*
56418513 CGGCGTTTTCTAGTAAGCGCCAC-----TAA-TATA-ATCAAAATTAAAACTATGCGTTTTAGTT
196 CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
56418571 AAGATA
261 AAGATA
*
56418577 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGATGCGTT
1 TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
* *
56418642 TTGGTTCAGATTTTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACTAA
66 TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
*
56418707 ACACTGCGTTTTGTTAAGATACGTTGCAGCGCTTTGGCTCAAGCGCCGCTAAAGCTATTCTTTAA
131 ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCTAAAGCTATTCTTTAA
* * *
56418772 TGGTGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTA
196 CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
56418837 AAGATA
261 AAGATA
56418843 -TTTTGCGGCG
1 TTTTTGCGGCG
56418853 CTTTCTACGA
Statistics
Matches: 498, Mismatches: 30, Indels: 15
0.92 0.06 0.03
Matches are distributed among these distances:
259 237 0.48
260 4 0.01
261 3 0.01
264 3 0.01
265 14 0.03
266 237 0.48
ACGTcount: A:0.29, C:0.19, G:0.20, T:0.32
Consensus pattern (266 bp):
TTTTTGCGGCGTTTTAACGTCAGCGCCACTAATTGAAGTATACATCGAGACCAAAACGGTGCGTT
TTGGTTCAGATATTTTGCGGCGTTTTCCTATAAGCGCCACTAAATGTAACATAGCTTAAGACAAA
ACACTGCGTTTTGTTAAGATACGTTGCGGCGCTTTGGCTCAAGCGCCGCTAAAGCTATTCTTTAA
CGGCGTTTTCTAGTAAGCGCCACTAATATAAGTATACATCAAAATTAAAACTACGCGTTTTAGTT
AAGATA
Found at i:56418982 original size:116 final size:113
Alignment explanation
Indices: 56418826--56419066 Score: 261
Period size: 113 Copynumber: 2.1 Consensus size: 113
56418816 TTAAAACTAC
* * * * *
56418826 GCGTTTTAGTAAAGATATTTTGCGGCGCTTTCTACGAAACGCCGCTAATACGGTGCTTTAGCGGC
1 GCGTTTTGGTTAAGATATTTTGCGGCGCTATCTACAAAACGCCGCT-A-A-GATGCTTTAGCGGC
* *
56418891 G-CATATCACAAAGTGCCACTAAATCTAGGATACAACAACACCAAAAACGAT
63 GTCATATCA-AAAGCGCCACTAAATCTAGGATACAACAAAACCAAAAACGAT
* *
56418942 GCGTTTTGGTTAAGATATTTTGCGGCGCATATC-GCAAAACGCCGCTAAGATGCTTTCGCGGCGT
1 GCGTTTTGGTTAAGATATTTTGCGGCGC-TATCTACAAAACGCCGCTAAGATGCTTTAGCGGCGT
** * * * * * *
56419006 TTTTTTAGAAGCGCCACTAATTCTAGGATACATCAAAACTAAAAACGAT
65 CATATCAAAAGCGCCACTAAATCTAGGATACAACAAAACCAAAAACGAT
*
56419055 GTGTTTTGGTTA
1 GCGTTTTGGTTA
56419067 GGAGAAATTA
Statistics
Matches: 105, Mismatches: 18, Indels: 7
0.81 0.14 0.05
Matches are distributed among these distances:
113 60 0.57
114 4 0.04
115 1 0.01
116 37 0.35
117 3 0.03
ACGTcount: A:0.30, C:0.21, G:0.21, T:0.28
Consensus pattern (113 bp):
GCGTTTTGGTTAAGATATTTTGCGGCGCTATCTACAAAACGCCGCTAAGATGCTTTAGCGGCGTC
ATATCAAAAGCGCCACTAAATCTAGGATACAACAAAACCAAAAACGAT
Found at i:56419054 original size:113 final size:113
Alignment explanation
Indices: 56418905--56419196 Score: 311
Period size: 113 Copynumber: 2.6 Consensus size: 113
56418895 ATCACAAAGT
* * * * *
56418905 GCCACTAAATCTAGGATACAACAACACCAAAAACGATGCGTTTTGGTTAAGATATTTTGCGGCGC
1 GCCACTAATTCTAGGATACATCAA-AACAAAAACGATGTGTTTTGGTTAAGAGATTTTGCGGCGC
** * *
56418970 -ATATCGCAAAACGCCGCTAAGATGCTTTCGCGGCGT-TTTTTTAGAAGC
65 GATATCGCAAAACGCCGCTAAGACACTTTAGCGGCATGTTTTTT-GAAGC
* ** * *
56419018 GCCACTAATTCTAGGATACATCAAAACTAAAAACGATGTGTTTTGGTTAGGAGAAATTACGGAGC
1 GCCACTAATTCTAGGATACATCAAAAC-AAAAACGATGTGTTTTGGTTAAGAGATTTTGCGGCGC
* * * * *
56419083 GTTGTTGTAAAATGCCGCTAAGACACTTTAGCGGCATGTTTTTTGAAGC
65 GATATCGCAAAACGCCGCTAAGACACTTTAGCGGCATGTTTTTTGAAGC
* * * * *
56419132 GCCACTAATTCTTGCATACAT-AAAGACGAAAACGTTGTGTTTTGGATAAGAGATTTTGCGGCGC
1 GCCACTAATTCTAGGATACATCAAA-ACAAAAACGATGTGTTTTGGTTAAGAGATTTTGCGGCGC
56419196 G
65 G
56419197 GTTGTAAACG
Statistics
Matches: 146, Mismatches: 29, Indels: 8
0.80 0.16 0.04
Matches are distributed among these distances:
112 2 0.01
113 85 0.58
114 53 0.36
115 6 0.04
ACGTcount: A:0.30, C:0.18, G:0.23, T:0.28
Consensus pattern (113 bp):
GCCACTAATTCTAGGATACATCAAAACAAAAACGATGTGTTTTGGTTAAGAGATTTTGCGGCGCG
ATATCGCAAAACGCCGCTAAGACACTTTAGCGGCATGTTTTTTGAAGC
Found at i:56426030 original size:38 final size:38
Alignment explanation
Indices: 56425965--56426044 Score: 108
Period size: 38 Copynumber: 2.1 Consensus size: 38
56425955 TCAAGGCGGT
56425965 GACAATTCTAGACTCAATATGGAATTAACTCATGCAAC
1 GACAATTCTAGACTCAATATGGAATTAACTCATGCAAC
* * * *
56426003 GACAATTCTGGA-TGCAATCTGGGATTAACTCATGTAAC
1 GACAATTCTAGACT-CAATATGGAATTAACTCATGCAAC
56426041 GACA
1 GACA
56426045 TTAATGTAAT
Statistics
Matches: 37, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
37 1 0.03
38 36 0.97
ACGTcount: A:0.36, C:0.20, G:0.17, T:0.26
Consensus pattern (38 bp):
GACAATTCTAGACTCAATATGGAATTAACTCATGCAAC
Found at i:56431713 original size:27 final size:27
Alignment explanation
Indices: 56431683--56431860 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56431673 ATATTGAGTC
* * * *
56431683 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAGTCAAAT
* *
56431710 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56431737 CGCACACTTAGTGCTACATAGTCAAACT
1 CGCACACTTAGTGCTACATAGTCAAA-T
** * *
56431765 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAGTCAAAT
* **
56431792 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAGTCAAAT
*
56431819 CGCACACTTAGTGCAACATAGTCAAAT
1 CGCACACTTAGTGCTACATAGTCAAAT
56431846 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
56431861 GTACAATTTA
Statistics
Matches: 130, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 24 0.18
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAGTCAAAT
Found at i:56431822 original size:82 final size:81
Alignment explanation
Indices: 56431704--56431859 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56431694 TGCTATATAA
* *
56431704 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
56431769 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
56431786 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
56431850 CACTTAGTGC
65 CACTTAGTGC
56431860 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:56439326 original size:66 final size:66
Alignment explanation
Indices: 56439218--56439341 Score: 187
Period size: 66 Copynumber: 1.9 Consensus size: 66
56439208 ATCTGGATAG
* * *
56439218 CTGTCAAGTGCGGTGAAAATTCTAGATGGAATCTGGAGTTAACTCATGCTGCGACATTGCAGGCA
1 CTGTCAAGTGCGGTGAAAATTCTAGACGCAATCTGGAGTTAACTCATGCAGCGACATTGCAGGCA
56439283 A
66 A
* *
56439284 CTGTCAAGTGCGGTGACAATTCTGGACGCAATCTAGGA-TTAACTCATGCAGCGACATT
1 CTGTCAAGTGCGGTGAAAATTCTAGACGCAATCT-GGAGTTAACTCATGCAGCGACATT
56439342 AATGCAATAA
Statistics
Matches: 52, Mismatches: 5, Indels: 2
0.88 0.08 0.03
Matches are distributed among these distances:
66 49 0.94
67 3 0.06
ACGTcount: A:0.28, C:0.20, G:0.26, T:0.26
Consensus pattern (66 bp):
CTGTCAAGTGCGGTGAAAATTCTAGACGCAATCTGGAGTTAACTCATGCAGCGACATTGCAGGCA
A
Found at i:56439525 original size:36 final size:36
Alignment explanation
Indices: 56439478--56439549 Score: 135
Period size: 36 Copynumber: 2.0 Consensus size: 36
56439468 ATAAGTAAGG
56439478 GGGAAAGCCTATATTCTTTTTAGTGCTATCAACGAC
1 GGGAAAGCCTATATTCTTTTTAGTGCTATCAACGAC
*
56439514 GGGAAAGCCTATATTCTTTTTAGTGCTATCAGCGAC
1 GGGAAAGCCTATATTCTTTTTAGTGCTATCAACGAC
56439550 AATAAAGTAT
Statistics
Matches: 35, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
36 35 1.00
ACGTcount: A:0.26, C:0.19, G:0.21, T:0.33
Consensus pattern (36 bp):
GGGAAAGCCTATATTCTTTTTAGTGCTATCAACGAC
Found at i:56442189 original size:16 final size:15
Alignment explanation
Indices: 56442156--56442193 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
56442146 GGATTTTAAA
56442156 TTTTTAAAAATAGTT
1 TTTTTAAAAATAGTT
56442171 TTTTTAAAATATA-TAT
1 TTTTTAAAA-ATAGT-T
56442187 TTTTTAA
1 TTTTTAA
56442194 TTTTTAGTGA
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
15 10 0.48
16 11 0.52
ACGTcount: A:0.39, C:0.00, G:0.03, T:0.58
Consensus pattern (15 bp):
TTTTTAAAAATAGTT
Found at i:56442307 original size:60 final size:61
Alignment explanation
Indices: 56442204--56442320 Score: 164
Period size: 60 Copynumber: 1.9 Consensus size: 61
56442194 TTTTTAGTGA
* * ** *
56442204 TAGAACTAAATTGATAAATTTTGTAAATGTTGAGGGCCAAATTTATTAATTTTTTTATAAT
1 TAGAAATAAAGTGATAAATTTTGTAAACATTGAGGGCCAAATTTATTAAATTTTTTATAAT
* *
56442265 TAGAAATAAAGTGATAAATTTT-TAAACATTGAGGGCGAAATTTGTTAAATTTTTTA
1 TAGAAATAAAGTGATAAATTTTGTAAACATTGAGGGCCAAATTTATTAAATTTTTTA
56442321 GATTTAGGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
60 29 0.59
61 20 0.41
ACGTcount: A:0.39, C:0.04, G:0.15, T:0.42
Consensus pattern (61 bp):
TAGAAATAAAGTGATAAATTTTGTAAACATTGAGGGCCAAATTTATTAAATTTTTTATAAT
Found at i:56443569 original size:17 final size:18
Alignment explanation
Indices: 56443549--56443587 Score: 55
Period size: 18 Copynumber: 2.2 Consensus size: 18
56443539 TATATTACTA
56443549 ATTTTT-TTATTT-TATAT
1 ATTTTTATTATTTATA-AT
56443566 ATTTTTATTATTTATAAT
1 ATTTTTATTATTTATAAT
56443584 ATTT
1 ATTT
56443588 ATCACGTTTA
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 6 0.30
18 12 0.60
19 2 0.10
ACGTcount: A:0.28, C:0.00, G:0.00, T:0.72
Consensus pattern (18 bp):
ATTTTTATTATTTATAAT
Found at i:56443808 original size:21 final size:20
Alignment explanation
Indices: 56443778--56443823 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 20
56443768 AAGAAAAGGA
56443778 AAATTAATTACATTA-TTTT
1 AAATTAATTACATTAGTTTT
*
56443797 GAAATTATATTACTTTAGTTTT
1 -AAATTA-ATTACATTAGTTTT
56443819 AAATT
1 AAATT
56443824 GGAAAAAACA
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
20 6 0.26
21 13 0.57
22 4 0.17
ACGTcount: A:0.39, C:0.04, G:0.04, T:0.52
Consensus pattern (20 bp):
AAATTAATTACATTAGTTTT
Found at i:56444203 original size:6 final size:6
Alignment explanation
Indices: 56444194--56444221 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
56444184 GGAAAAAGAA
56444194 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
1 AAAAAT AAAAAT AAAAAT AAAAAT AAAA
56444222 TTGGAATTAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.86, C:0.00, G:0.00, T:0.14
Consensus pattern (6 bp):
AAAAAT
Found at i:56467868 original size:21 final size:21
Alignment explanation
Indices: 56467820--56467869 Score: 57
Period size: 21 Copynumber: 2.4 Consensus size: 21
56467810 TGTGTTCTAC
*
56467820 CGATAGAAGTCCAGGTTGTAT
1 CGATAGAAGCCCAGGTTGTAT
*
56467841 CGGTAGAA-CCCAGAGTTGTAT
1 CGATAGAAGCCCAG-GTTGTAT
*
56467862 TGATAGAA
1 CGATAGAA
56467870 TTCCCAGTTC
Statistics
Matches: 24, Mismatches: 4, Indels: 2
0.80 0.13 0.07
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.32, C:0.14, G:0.28, T:0.26
Consensus pattern (21 bp):
CGATAGAAGCCCAGGTTGTAT
Found at i:56471090 original size:15 final size:13
Alignment explanation
Indices: 56471059--56471084 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56471049 CTACAGGGGA
56471059 CACATGGCCGTGT
1 CACATGGCCGTGT
56471072 CACATGGCCGTGT
1 CACATGGCCGTGT
56471085 GTCACACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
CACATGGCCGTGT
Found at i:56471943 original size:41 final size:40
Alignment explanation
Indices: 56471898--56472020 Score: 192
Period size: 40 Copynumber: 3.0 Consensus size: 40
56471888 CATAAGTGTT
*
56471898 ATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATATGCA
1 ATTCAGGGGTACCAAAGTAC-AATAGGGGCACGTATGTGCA
*
56471939 ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGTA
1 ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGCA
* * *
56471979 ATTCAGGGGTACCGAAGTATAACAGGGGCACGTATGTGCA
1 ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGCA
56472019 AT
1 AT
56472021 ACGGCCAAGC
Statistics
Matches: 76, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
40 56 0.74
41 20 0.26
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.21
Consensus pattern (40 bp):
ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGCA
Found at i:56471961 original size:21 final size:21
Alignment explanation
Indices: 56471898--56471961 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
56471888 CATAAGTGTT
56471898 ATTCAGGGGTACCAAAGTACA
1 ATTCAGGGGTACCAAAGTACA
* * * * *
56471919 AAT-AGGGGCACGTATA-TGCA
1 ATTCAGGGGTAC-CAAAGTACA
56471939 ATTCAGGGGTACCAAAGTACA
1 ATTCAGGGGTACCAAAGTACA
56471960 AT
1 AT
56471962 AGGGGCACGT
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (21 bp):
ATTCAGGGGTACCAAAGTACA
Found at i:56471982 original size:40 final size:40
Alignment explanation
Indices: 56471881--56472016 Score: 191
Period size: 40 Copynumber: 3.4 Consensus size: 40
56471871 GAGTGTGAAC
* * *
56471881 AGGGGCACATAAGTGTTATTCAGGGGTACCAAAGTACAAAT
1 AGGGGCACGTATGTGTAATTCAGGGGTACCAAAGTAC-AAT
* *
56471922 AGGGGCACGTATATGCAATTCAGGGGTACCAAAGTACAAT
1 AGGGGCACGTATGTGTAATTCAGGGGTACCAAAGTACAAT
* * *
56471962 AGGGGCACGTATGTGTAATTCAGGGGTACCGAAGTATAAC
1 AGGGGCACGTATGTGTAATTCAGGGGTACCAAAGTACAAT
56472002 AGGGGCACGTATGTG
1 AGGGGCACGTATGTG
56472017 CAATACGGCC
Statistics
Matches: 85, Mismatches: 10, Indels: 1
0.89 0.10 0.01
Matches are distributed among these distances:
40 53 0.62
41 32 0.38
ACGTcount: A:0.32, C:0.15, G:0.31, T:0.21
Consensus pattern (40 bp):
AGGGGCACGTATGTGTAATTCAGGGGTACCAAAGTACAAT
Found at i:56472167 original size:15 final size:13
Alignment explanation
Indices: 56472136--56472161 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
56472126 CTACAGGGGA
56472136 CACATGGCCGTGT
1 CACATGGCCGTGT
56472149 CACATGGCCGTGT
1 CACATGGCCGTGT
56472162 GTCACACACG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.15, C:0.31, G:0.31, T:0.23
Consensus pattern (13 bp):
CACATGGCCGTGT
Found at i:56473038 original size:21 final size:21
Alignment explanation
Indices: 56472975--56473038 Score: 60
Period size: 21 Copynumber: 3.1 Consensus size: 21
56472965 CATAAGTGTT
56472975 ATTCAGGGGTACCAAAGTACA
1 ATTCAGGGGTACCAAAGTACA
* * * * *
56472996 AAT-AGGGGCACGTATA-TGCA
1 ATTCAGGGGTAC-CAAAGTACA
56473016 ATTCAGGGGTACCAAAGTACA
1 ATTCAGGGGTACCAAAGTACA
56473037 AT
1 AT
56473039 AGGGGCACGT
Statistics
Matches: 30, Mismatches: 10, Indels: 6
0.65 0.22 0.13
Matches are distributed among these distances:
20 14 0.47
21 16 0.53
ACGTcount: A:0.38, C:0.17, G:0.25, T:0.20
Consensus pattern (21 bp):
ATTCAGGGGTACCAAAGTACA
Found at i:56473059 original size:40 final size:40
Alignment explanation
Indices: 56472975--56473132 Score: 244
Period size: 40 Copynumber: 3.9 Consensus size: 40
56472965 CATAAGTGTT
*
56472975 ATTCAGGGGTACCAAAGTACAAATAGGGGCACGTATATGCA
1 ATTCAGGGGTACCAAAGTAC-AATAGGGGCACGTATGTGCA
*
56473016 ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGTA
1 ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGCA
* * *
56473056 ATTCAGGGGTACCGAAGTATAACAGGGGCACGTATGTGCA
1 ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGCA
* *
56473096 ATTCAGGGGTATCGAAGTACAATAGGGGCACGTATGT
1 ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGT
56473133 ATGTGCAATT
Statistics
Matches: 108, Mismatches: 9, Indels: 1
0.92 0.08 0.01
Matches are distributed among these distances:
40 88 0.81
41 20 0.19
ACGTcount: A:0.32, C:0.16, G:0.30, T:0.22
Consensus pattern (40 bp):
ATTCAGGGGTACCAAAGTACAATAGGGGCACGTATGTGCA
Found at i:56473104 original size:21 final size:21
Alignment explanation
Indices: 56472999--56473104 Score: 69
Period size: 21 Copynumber: 5.2 Consensus size: 21
56472989 AAGTACAAAT
*
56472999 AGGGGCACGTATATGCAATTC
1 AGGGGCACGTATGTGCAATTC
* ** * *
56473020 AGGGGTACCAAAGTACAA-T-
1 AGGGGCACGTATGTGCAATTC
*
56473039 AGGGGCACGTATGTGTAATTC
1 AGGGGCACGTATGTGCAATTC
* * **
56473060 AGGGGTACCG-AAGTATAA--C
1 AGGGGCA-CGTATGTGCAATTC
56473079 AGGGGCACGTATGTGCAATTC
1 AGGGGCACGTATGTGCAATTC
56473100 AGGGG
1 AGGGG
56473105 TATCGAAGTA
Statistics
Matches: 60, Mismatches: 19, Indels: 12
0.66 0.21 0.13
Matches are distributed among these distances:
18 2 0.03
19 24 0.40
20 2 0.03
21 30 0.50
22 2 0.03
ACGTcount: A:0.30, C:0.16, G:0.33, T:0.21
Consensus pattern (21 bp):
AGGGGCACGTATGTGCAATTC
Found at i:56473118 original size:21 final size:20
Alignment explanation
Indices: 56472975--56473118 Score: 57
Period size: 21 Copynumber: 7.1 Consensus size: 20
56472965 CATAAGTGTT
*
56472975 ATTCAGGGGTACCAAAGTACA
1 ATTCAGGGGTA-CGAAGTACA
* * *
56472996 AAT-AGGGGCACGTATA-TGCA
1 ATTCAGGGGTACG-A-AGTACA
*
56473016 ATTCAGGGGTACCAAAGTACA
1 ATTCAGGGGTA-CGAAGTACA
* * **
56473037 A-T-AGGGGCACGTATGTGTA
1 ATTCAGGGGTACG-AAGTACA
*
56473056 ATTCAGGGGTACCGAAGTATA
1 ATTCAGGGGTA-CGAAGTACA
* * *
56473077 A--CAGGGGCACGTATGTGCA
1 ATTCAGGGGTACG-AAGTACA
56473096 ATTCAGGGGTATCGAAGTACA
1 ATTCAGGGGTA-CGAAGTACA
56473117 AT
1 AT
56473119 AGGGGCACGT
Statistics
Matches: 87, Mismatches: 23, Indels: 26
0.64 0.17 0.19
Matches are distributed among these distances:
18 3 0.03
19 24 0.28
20 15 0.17
21 40 0.46
22 5 0.06
ACGTcount: A:0.33, C:0.16, G:0.29, T:0.22
Consensus pattern (20 bp):
ATTCAGGGGTACGAAGTACA
Found at i:56481437 original size:26 final size:26
Alignment explanation
Indices: 56481401--56481455 Score: 101
Period size: 26 Copynumber: 2.1 Consensus size: 26
56481391 GTCCTATATT
*
56481401 TCTTTTGCATTATCACACAAGGAGAC
1 TCTTTTGCATTATCACACAAGGAAAC
56481427 TCTTTTGCATTATCACACAAGGAAAC
1 TCTTTTGCATTATCACACAAGGAAAC
56481453 TCT
1 TCT
56481456 ACTATACTCA
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 28 1.00
ACGTcount: A:0.31, C:0.24, G:0.13, T:0.33
Consensus pattern (26 bp):
TCTTTTGCATTATCACACAAGGAAAC
Found at i:56485930 original size:22 final size:22
Alignment explanation
Indices: 56485902--56485956 Score: 110
Period size: 22 Copynumber: 2.5 Consensus size: 22
56485892 TGTTATCAAA
56485902 ATCGCGATACCAAGTCTTGGAT
1 ATCGCGATACCAAGTCTTGGAT
56485924 ATCGCGATACCAAGTCTTGGAT
1 ATCGCGATACCAAGTCTTGGAT
56485946 ATCGCGATACC
1 ATCGCGATACC
56485957 CACCTGACAA
Statistics
Matches: 33, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.27, C:0.25, G:0.22, T:0.25
Consensus pattern (22 bp):
ATCGCGATACCAAGTCTTGGAT
Found at i:56495696 original size:38 final size:38
Alignment explanation
Indices: 56495654--56495790 Score: 123
Period size: 38 Copynumber: 3.6 Consensus size: 38
56495644 ACAATAAGCT
* * *
56495654 TGCTAAGCACTAAGCTTGAATAACACCGACACTAAGAC
1 TGCTAAGCACAAAGCCTAAATAACACCGACACTAAGAC
* * * *
56495692 TGCTAAGCGCAAAGCCTAAATAACACTGGCACTAAGCC
1 TGCTAAGCACAAAGCCTAAATAACACCGACACTAAGAC
* * * ** *
56495730 TACTAGGCACAAAGCCTAGATAACATGGGCACTAAG-C
1 TGCTAAGCACAAAGCCTAAATAACACCGACACTAAGAC
* *
56495767 TTACTAGGCACAAAGCCTAAATAA
1 -TGCTAAGCACAAAGCCTAAATAA
56495791 TGGTATAACT
Statistics
Matches: 84, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
37 1 0.01
38 83 0.99
ACGTcount: A:0.39, C:0.26, G:0.18, T:0.18
Consensus pattern (38 bp):
TGCTAAGCACAAAGCCTAAATAACACCGACACTAAGAC
Found at i:56515863 original size:30 final size:31
Alignment explanation
Indices: 56515827--56515894 Score: 84
Period size: 30 Copynumber: 2.2 Consensus size: 31
56515817 TTGCCCAAGA
** * **
56515827 GTAAATACTCAAAATTTGAGGGATTAA-AGT
1 GTAAATACGAAAAATTTGAAGGACCAATAGT
56515857 GTAAATACGAAAAATTTGAAGGACCAATAGT
1 GTAAATACGAAAAATTTGAAGGACCAATAGT
56515888 GTAAATA
1 GTAAATA
56515895 TTTTAAGGGT
Statistics
Matches: 32, Mismatches: 5, Indels: 1
0.84 0.13 0.03
Matches are distributed among these distances:
30 22 0.69
31 10 0.31
ACGTcount: A:0.47, C:0.07, G:0.19, T:0.26
Consensus pattern (31 bp):
GTAAATACGAAAAATTTGAAGGACCAATAGT
Found at i:56518031 original size:13 final size:13
Alignment explanation
Indices: 56518013--56518037 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
56518003 GCGATTTAAA
56518013 CTATAAGGATTAC
1 CTATAAGGATTAC
56518026 CTATAAGGATTA
1 CTATAAGGATTA
56518038 AACTATGGGG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.40, C:0.12, G:0.16, T:0.32
Consensus pattern (13 bp):
CTATAAGGATTAC
Found at i:56518371 original size:22 final size:22
Alignment explanation
Indices: 56518325--56518371 Score: 67
Period size: 22 Copynumber: 2.1 Consensus size: 22
56518315 AGTTGAACTG
* *
56518325 CCAGTAAATTACAAACAAGCTA
1 CCAGTAAATTACAAACAAACCA
*
56518347 CCAGTAAATTGCAAACAAACCA
1 CCAGTAAATTACAAACAAACCA
56518369 CCA
1 CCA
56518372 ATACTCCACG
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
22 22 1.00
ACGTcount: A:0.49, C:0.28, G:0.09, T:0.15
Consensus pattern (22 bp):
CCAGTAAATTACAAACAAACCA
Found at i:56518580 original size:37 final size:38
Alignment explanation
Indices: 56518539--56518612 Score: 98
Period size: 37 Copynumber: 2.0 Consensus size: 38
56518529 GATTTCAATA
*
56518539 TAGTGGCATGCTTA-GCATGCATTAAGT-AAAATAGTAT
1 TAGTGACATG-TTATGCATGCATTAAGTGAAAATAGTAT
* *
56518576 TAGTGACATGTTATGCATGCATTCAGTGAGAATAGTA
1 TAGTGACATGTTATGCATGCATTAAGTGAAAATAGTA
56518613 ACATTTAGAC
Statistics
Matches: 32, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
36 3 0.09
37 21 0.66
38 8 0.25
ACGTcount: A:0.34, C:0.11, G:0.23, T:0.32
Consensus pattern (38 bp):
TAGTGACATGTTATGCATGCATTAAGTGAAAATAGTAT
Found at i:56521553 original size:25 final size:25
Alignment explanation
Indices: 56521525--56521572 Score: 62
Period size: 25 Copynumber: 1.9 Consensus size: 25
56521515 TACCAATTCT
*
56521525 CAGCTCAT-ATGAGCTTACTGATTTC
1 CAGCTCATGA-GAGCATACTGATTTC
*
56521550 CAGCTCGTGAGAGCATACTGATT
1 CAGCTCATGAGAGCATACTGATT
56521573 CATAGCTCGT
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
25 19 0.95
26 1 0.05
ACGTcount: A:0.25, C:0.23, G:0.21, T:0.31
Consensus pattern (25 bp):
CAGCTCATGAGAGCATACTGATTTC
Found at i:56521586 original size:50 final size:49
Alignment explanation
Indices: 56521478--56521587 Score: 132
Period size: 50 Copynumber: 2.2 Consensus size: 49
56521468 ACACACCACT
* * *
56521478 GCTCGTATGAGCTTACCGATTTTAGCTTGTGAGAGCTTACCAATTCTCA
1 GCTCGTATGAGCTTACCGATTTCAGCTCGTGAGAGCATACCAATTCTCA
* * **
56521527 GCTCATATGAGCTTACTGATTTCCAGCTCGTGAGAGCATACTGATTCAT-A
1 GCTCGTATGAGCTTACCGATTT-CAGCTCGTGAGAGCATACCAATTC-TCA
56521577 GCTCGTATGAG
1 GCTCGTATGAG
56521588 TATACATGTA
Statistics
Matches: 51, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
49 20 0.39
50 30 0.59
51 1 0.02
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.33
Consensus pattern (49 bp):
GCTCGTATGAGCTTACCGATTTCAGCTCGTGAGAGCATACCAATTCTCA
Found at i:56521592 original size:25 final size:25
Alignment explanation
Indices: 56521525--56521592 Score: 61
Period size: 25 Copynumber: 2.7 Consensus size: 25
56521515 TACCAATTCT
*
56521525 CAGCTCATATGAGCT-TACTGATTTC
1 CAGCTCGTATGAG-TATACTGATTTC
*
56521550 CAGCTCGTGA-GAGCATACTGA-TTC
1 CAGCTCGT-ATGAGTATACTGATTTC
*
56521574 ATAGCTCGTATGAGTATAC
1 -CAGCTCGTATGAGTATAC
56521593 ATGTACAGGA
Statistics
Matches: 35, Mismatches: 4, Indels: 8
0.74 0.09 0.17
Matches are distributed among these distances:
24 4 0.11
25 30 0.86
26 1 0.03
ACGTcount: A:0.26, C:0.22, G:0.21, T:0.31
Consensus pattern (25 bp):
CAGCTCGTATGAGTATACTGATTTC
Found at i:56534768 original size:34 final size:32
Alignment explanation
Indices: 56534692--56534769 Score: 88
Period size: 34 Copynumber: 2.3 Consensus size: 32
56534682 GTAATTAATT
56534692 AATTTTTT-AAAATTAAAAAAATTAAAAAATA
1 AATTTTTTAAAAATTAAAAAAATTAAAAAATA
56534723 AATTTTATTTAAAAATATATAAAAATATTAAAAAA-A
1 AA-TTT-TTTAAAAAT-TA-AAAAA-ATTAAAAAATA
*
56534759 TATTTTTTAAA
1 AATTTTTTAAA
56534770 TTTTTTAAAT
Statistics
Matches: 40, Mismatches: 1, Indels: 9
0.80 0.02 0.18
Matches are distributed among these distances:
31 2 0.05
32 3 0.08
33 3 0.08
34 11 0.28
35 5 0.12
36 7 0.17
37 9 0.22
ACGTcount: A:0.60, C:0.00, G:0.00, T:0.40
Consensus pattern (32 bp):
AATTTTTTAAAAATTAAAAAAATTAAAAAATA
Found at i:56534773 original size:8 final size:9
Alignment explanation
Indices: 56534760--56534787 Score: 56
Period size: 9 Copynumber: 3.1 Consensus size: 9
56534750 TTAAAAAAAT
56534760 ATTTTTTAA
1 ATTTTTTAA
56534769 ATTTTTTAA
1 ATTTTTTAA
56534778 ATTTTTTAA
1 ATTTTTTAA
56534787 A
1 A
56534788 AAATTCATTA
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:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (9 bp):
ATTTTTTAA
Found at i:56535530 original size:25 final size:25
Alignment explanation
Indices: 56535502--56535551 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
56535492 CAGGTAAGGC
56535502 TCCTTCTCCTTCTTCCGTGCTTCAT
1 TCCTTCTCCTTCTTCCGTGCTTCAT
* * *
56535527 TCCTTTTTCTTCTTCCGTTCTTCAT
1 TCCTTCTCCTTCTTCCGTGCTTCAT
56535552 CTTCTCTTCT
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.04, C:0.36, G:0.06, T:0.54
Consensus pattern (25 bp):
TCCTTCTCCTTCTTCCGTGCTTCAT
Found at i:56535559 original size:22 final size:24
Alignment explanation
Indices: 56535502--56535561 Score: 70
Period size: 25 Copynumber: 2.5 Consensus size: 24
56535492 CAGGTAAGGC
56535502 TCCTTCTCCTTCTTCCGTGCTTCAT
1 TCCTTCT-CTTCTTCCGTGCTTCAT
* *
56535527 TCCTTTTTCTTCTTCCGTTCTTCA-
1 TCC-TTCTCTTCTTCCGTGCTTCAT
56535551 T-CTTCTCTTCT
1 TCCTTCTCTTCT
56535562 CAGCATATTC
Statistics
Matches: 31, Mismatches: 3, Indels: 5
0.79 0.08 0.13
Matches are distributed among these distances:
22 8 0.26
23 1 0.03
24 1 0.03
25 18 0.58
26 3 0.10
ACGTcount: A:0.03, C:0.37, G:0.05, T:0.55
Consensus pattern (24 bp):
TCCTTCTCTTCTTCCGTGCTTCAT
Found at i:56535784 original size:8 final size:8
Alignment explanation
Indices: 56535771--56535798 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
56535761 GTCATTAACT
56535771 TGGAATTG
1 TGGAATTG
56535779 TGGAATTG
1 TGGAATTG
56535787 TGGAATTG
1 TGGAATTG
56535795 TGGA
1 TGGA
56535799 TTATGCTGTT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 20 1.00
ACGTcount: A:0.25, C:0.00, G:0.39, T:0.36
Consensus pattern (8 bp):
TGGAATTG
Found at i:56538509 original size:30 final size:30
Alignment explanation
Indices: 56538473--56538529 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
56538463 TTATATTCGA
* *
56538473 TATTTTTGTAAGTGCAATACACATAAAGGG
1 TATTTTTGTAAGAGCAATACAAATAAAGGG
56538503 TATTTTTGTAAGAGCAATACAAATAAA
1 TATTTTTGTAAGAGCAATACAAATAAA
56538530 TATAATTGTA
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.42, C:0.09, G:0.16, T:0.33
Consensus pattern (30 bp):
TATTTTTGTAAGAGCAATACAAATAAAGGG
Found at i:56539980 original size:29 final size:30
Alignment explanation
Indices: 56539924--56539981 Score: 75
Period size: 29 Copynumber: 2.0 Consensus size: 30
56539914 TTGGTAAATG
* *
56539924 TACTTTCATAAAATGTCTATGTGGTACTTA
1 TACTTTCATAAAATGTCAATGTGATACTTA
56539954 TACTTT-A-AAAATGTTCAATGTGATACTT
1 TACTTTCATAAAATG-TCAATGTGATACTT
56539982 GAACTATCAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
28 6 0.24
29 13 0.52
30 6 0.24
ACGTcount: A:0.33, C:0.12, G:0.12, T:0.43
Consensus pattern (30 bp):
TACTTTCATAAAATGTCAATGTGATACTTA
Found at i:56549638 original size:14 final size:15
Alignment explanation
Indices: 56549615--56549647 Score: 50
Period size: 14 Copynumber: 2.3 Consensus size: 15
56549605 CACTTTGTGG
*
56549615 TAATTTTATTT-TTT
1 TAATTATATTTATTT
56549629 TAATTATATTTATTT
1 TAATTATATTTATTT
56549644 TAAT
1 TAAT
56549648 AAATGTTACA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
14 10 0.59
15 7 0.41
ACGTcount: A:0.30, C:0.00, G:0.00, T:0.70
Consensus pattern (15 bp):
TAATTATATTTATTT
Found at i:56550627 original size:22 final size:22
Alignment explanation
Indices: 56550599--56550644 Score: 92
Period size: 22 Copynumber: 2.1 Consensus size: 22
56550589 TGTTGAATTC
56550599 TTTAGCTACATTTCTTTGGTGT
1 TTTAGCTACATTTCTTTGGTGT
56550621 TTTAGCTACATTTCTTTGGTGT
1 TTTAGCTACATTTCTTTGGTGT
56550643 TT
1 TT
56550645 CGTAATGAGT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 24 1.00
ACGTcount: A:0.13, C:0.13, G:0.17, T:0.57
Consensus pattern (22 bp):
TTTAGCTACATTTCTTTGGTGT
Found at i:56550699 original size:26 final size:26
Alignment explanation
Indices: 56550668--56550723 Score: 85
Period size: 26 Copynumber: 2.2 Consensus size: 26
56550658 TACTAGTGAT
* *
56550668 TTATTTTGTATTCTAATGTTAATTTC
1 TTATTTTATATTCCAATGTTAATTTC
*
56550694 TTATTTTATATTCCGATGTTAATTTC
1 TTATTTTATATTCCAATGTTAATTTC
56550720 TTAT
1 TTAT
56550724 GTCCCATGTT
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
26 27 1.00
ACGTcount: A:0.23, C:0.09, G:0.07, T:0.61
Consensus pattern (26 bp):
TTATTTTATATTCCAATGTTAATTTC
Found at i:56552806 original size:34 final size:34
Alignment explanation
Indices: 56552765--56552835 Score: 142
Period size: 34 Copynumber: 2.1 Consensus size: 34
56552755 AAGTAATAAA
56552765 GAATATCACTGATTTCACATGTCAATTAAAGAAT
1 GAATATCACTGATTTCACATGTCAATTAAAGAAT
56552799 GAATATCACTGATTTCACATGTCAATTAAAGAAT
1 GAATATCACTGATTTCACATGTCAATTAAAGAAT
56552833 GAA
1 GAA
56552836 ACACACTTGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
34 37 1.00
ACGTcount: A:0.42, C:0.14, G:0.13, T:0.31
Consensus pattern (34 bp):
GAATATCACTGATTTCACATGTCAATTAAAGAAT
Found at i:56554100 original size:14 final size:15
Alignment explanation
Indices: 56554081--56554109 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
56554071 TTATGTTACT
56554081 AAAAATA-TAAAATA
1 AAAAATATTAAAATA
56554095 AAAAATATTAAAATA
1 AAAAATATTAAAATA
56554110 TAATTTTCCA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 7 0.50
15 7 0.50
ACGTcount: A:0.76, C:0.00, G:0.00, T:0.24
Consensus pattern (15 bp):
AAAAATATTAAAATA
Found at i:56555198 original size:376 final size:379
Alignment explanation
Indices: 56554481--56555214 Score: 898
Period size: 376 Copynumber: 1.9 Consensus size: 379
56554471 GCAAAAATAT
* * * * * * *
56554481 TTCAATTGATTACCAATAAAATATTTTTTAAAACCTATATAACAGAATTTTTTTTGTTATTATGG
1 TTCAATTAATTACCAATAAAATATTTGTAAAAACATATATAAAAGAATTTTTCTTGTTATCA--G
* ** **
56554546 TCAAAAAAATTAAATATCTTTAATTAAAAATGCCATTTTCCATATATTTTATTATTTATTTAAAT
64 TCAAAAAAATTAAATATCGTTAACGAAAAATGCCATGGTCCATATATTTTATTATTTATTTAAAT
* ** **
56554611 TTATTTTTTTAATGTTTTCAATTTAACCTAGCCTTTTATTGTTGGTTAATAAGAAATTTCTTTTT
129 TTATTATTTTAACATTTTCAATTTAACC-AGCCTTTTATTGTTGGTTAATAAGAAATTTCTGGTT
* * * * *
56554676 TCTAGAACAATTTATATGCATTTATTAACTAAAAGTAAGTTAAATGTTTCTATAGATTTGATTTG
193 TCTACAACAAATTATATGCATTTATTAACTAAAAGTAAGCTAAATATTTCTATAGATTTGATTCG
* *
56554741 ATTTATTTGTATTTCTATAAGTACATATAAATAAAAAAAATTTGGTTAAAAATGTCATTGTATTC
258 ATTTATTTATATTTCTATAAGTACATATAAATAAAAAAAATTTGGCTAAAAATGTCATTGTATTC
56554806 TTGAACTTAAATCACTAATTCACTATATATATAAAATTTACAAATATGAAAAAACAC
323 TTGAACTTAAATCACTAATTCACTATATATATAAAATTTACAAATATGAAAAAACAC
*
56554863 TTCAATTAATTATCAATAAAATATTTGTAAAAACATATATAAAAGAA-TTTTCTT-TTATCA-TC
1 TTCAATTAATTACCAATAAAATATTTGTAAAAACATATATAAAAGAATTTTTCTTGTTATCAGTC
* * * *
56554925 AAACAAATTAAATATCGTTAACCGAAAAATGTCATGGT-CATGTATTTCATTATTATTTTTTTAA
66 AAAAAAATTAAATATCGTTAA-CGAAAAATGCCATGGTCCATATA-TT--TTATTATTTATTTAA
* * * * *
56554989 TTTTATTATTTTAACATTTTCAATTTAA-C-G-TTTTTTTTTTTGGTTAATAAGAGATTT-TGGT
127 ATTTATTATTTTAACATTTTCAATTTAACCAGCCTTTTATTGTTGGTTAATAAGAAATTTCTGGT
* * *
56555050 TTC-ACAACAAATTATATGCATTTGTTATCTAACTTAAATTAAGCTAAATATTTCTATAGATTTT
192 TTCTACAACAAATTATATGCA--T-TTAT-TAACTAAAAGTAAGCTAAATATTTCTATAGATTTG
* ** *
56555114 ATTCGATTTATTTATCTTTCTATAAGTACATA-AAA-ATCAAAACTTTGGCTAAAAATGTCATTG
253 ATTCGATTTATTTATATTTCTATAAGTACATATAAATAAAAAAAATTTGGCTAAAAATGTCATTG
*
56555177 TATTCTCT-AGCTTAAATCACTAATTCACTATATATATA
318 TATTCT-TGAACTTAAATCACTAATTCACTATATATATA
56555215 CCTAAAATAT
Statistics
Matches: 301, Mismatches: 42, Indels: 24
0.82 0.11 0.07
Matches are distributed among these distances:
374 15 0.05
375 5 0.02
376 83 0.28
377 35 0.12
378 72 0.24
379 1 0.00
380 43 0.14
381 6 0.02
382 41 0.14
ACGTcount: A:0.38, C:0.10, G:0.07, T:0.45
Consensus pattern (379 bp):
TTCAATTAATTACCAATAAAATATTTGTAAAAACATATATAAAAGAATTTTTCTTGTTATCAGTC
AAAAAAATTAAATATCGTTAACGAAAAATGCCATGGTCCATATATTTTATTATTTATTTAAATTT
ATTATTTTAACATTTTCAATTTAACCAGCCTTTTATTGTTGGTTAATAAGAAATTTCTGGTTTCT
ACAACAAATTATATGCATTTATTAACTAAAAGTAAGCTAAATATTTCTATAGATTTGATTCGATT
TATTTATATTTCTATAAGTACATATAAATAAAAAAAATTTGGCTAAAAATGTCATTGTATTCTTG
AACTTAAATCACTAATTCACTATATATATAAAATTTACAAATATGAAAAAACAC
Found at i:56557198 original size:19 final size:20
Alignment explanation
Indices: 56557176--56557214 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
56557166 TAATTTGTTC
56557176 ATTTC-CTTTTAATCCCAAA
1 ATTTCTCTTTTAATCCCAAA
*
56557195 ATTTCTGTTTTAATCCCAAA
1 ATTTCTCTTTTAATCCCAAA
56557215 TTAGCCCATC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.31, C:0.23, G:0.03, T:0.44
Consensus pattern (20 bp):
ATTTCTCTTTTAATCCCAAA
Found at i:56562228 original size:14 final size:13
Alignment explanation
Indices: 56562211--56562284 Score: 73
Period size: 13 Copynumber: 5.8 Consensus size: 13
56562201 AAAAAATAAA
56562211 AAAATCAAAAAATC
1 AAAAT-AAAAAATC
**
56562225 AAAATAAAAAAGA
1 AAAATAAAAAATC
*
56562238 AAAAGAAAAAATC
1 AAAATAAAAAATC
56562251 AAAATAAAAAAATC
1 AAAAT-AAAAAATC
*
56562265 --AAT-CAAAATC
1 AAAATAAAAAATC
56562275 AAAATAAAAA
1 AAAATAAAAA
56562285 CATGAGAATG
Statistics
Matches: 48, Mismatches: 8, Indels: 9
0.74 0.12 0.14
Matches are distributed among these distances:
10 6 0.12
12 6 0.12
13 23 0.48
14 13 0.27
ACGTcount: A:0.77, C:0.08, G:0.03, T:0.12
Consensus pattern (13 bp):
AAAATAAAAAATC
Found at i:56562240 original size:26 final size:25
Alignment explanation
Indices: 56562199--56562284 Score: 95
Period size: 26 Copynumber: 3.4 Consensus size: 25
56562189 CAGATTCAAT
*
56562199 AAAAAAAATAAAAAAATCAAAAAATC
1 AAAATAAA-AAAAAAATCAAAAAATC
**
56562225 AAAATAAAAAAGAAAAAGAAAAAATC
1 AAAATAAAAAA-AAAATCAAAAAATC
*
56562251 AAAATAAAAAAATCAATC--AAAATC
1 AAAATAAAAAAA-AAATCAAAAAATC
56562275 AAAATAAAAA
1 AAAATAAAAA
56562285 CATGAGAATG
Statistics
Matches: 52, Mismatches: 6, Indels: 6
0.81 0.09 0.09
Matches are distributed among these distances:
24 16 0.31
25 4 0.08
26 32 0.62
ACGTcount: A:0.79, C:0.07, G:0.02, T:0.12
Consensus pattern (25 bp):
AAAATAAAAAAAAAATCAAAAAATC
Found at i:56562312 original size:12 final size:13
Alignment explanation
Indices: 56562297--56562339 Score: 54
Period size: 13 Copynumber: 3.4 Consensus size: 13
56562287 TGAGAATGAT
56562297 GAAAAGAAAAA-A
1 GAAAAGAAAAAGA
*
56562309 GAAAAGGAAAAATA
1 GAAAA-GAAAAAGA
56562323 -AAAAGAAAAAGA
1 GAAAAGAAAAAGA
56562335 GAAAA
1 GAAAA
56562340 AAGGAGAGGC
Statistics
Matches: 27, Mismatches: 1, Indels: 5
0.82 0.03 0.15
Matches are distributed among these distances:
12 12 0.44
13 14 0.52
14 1 0.04
ACGTcount: A:0.79, C:0.00, G:0.19, T:0.02
Consensus pattern (13 bp):
GAAAAGAAAAAGA
Found at i:56562487 original size:16 final size:16
Alignment explanation
Indices: 56562466--56562501 Score: 72
Period size: 16 Copynumber: 2.2 Consensus size: 16
56562456 ATCATCGAAG
56562466 GCTTCTAATGGGTATT
1 GCTTCTAATGGGTATT
56562482 GCTTCTAATGGGTATT
1 GCTTCTAATGGGTATT
56562498 GCTT
1 GCTT
56562502 ACTTTTCTAG
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:0.17, C:0.14, G:0.25, T:0.44
Consensus pattern (16 bp):
GCTTCTAATGGGTATT
Found at i:56565004 original size:44 final size:44
Alignment explanation
Indices: 56564587--56564991 Score: 650
Period size: 44 Copynumber: 9.2 Consensus size: 44
56564577 CACAAAGCCT
* *
56564587 TATCTCCCTGGCCAGTAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * *
56564631 TATCTCCCTGACCAGCAGTGAAATAGGTTGAAGACTGTAAGCCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
56564675 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
56564719 TATCTCCCTGACCAGCTGTGGAATAGGTTGAAGATTGCAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
*
56564763 TATCTCCTTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
56564807 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
*
56564851 TATCTCCCTGACCAGCAATGGAATAGGTTGAAGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* * * *
56564895 TATCTCCCCGACCAACAGTGGAATAGGTGGAGGATTGTAAGTCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
* *
56564939 TATCTCCCTGAACAACAGTGGAATAGGTTGAAGATTGT-AGATCC
1 TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAG-TCC
*
56564983 TTTCTCCCT
1 TATCTCCCT
56564992 AAGCAGTAGT
Statistics
Matches: 335, Mismatches: 25, Indels: 2
0.93 0.07 0.01
Matches are distributed among these distances:
43 2 0.01
44 333 0.99
ACGTcount: A:0.27, C:0.21, G:0.24, T:0.27
Consensus pattern (44 bp):
TATCTCCCTGACCAGCAGTGGAATAGGTTGAAGATTGTAAGTCC
Found at i:56565479 original size:17 final size:17
Alignment explanation
Indices: 56565440--56565481 Score: 50
Period size: 17 Copynumber: 2.5 Consensus size: 17
56565430 GTCCAGACTA
56565440 CAGACCC-AATTAAACC
1 CAGACCCAAATTAAACC
* * *
56565456 TAAACCCAAATTTAACC
1 CAGACCCAAATTAAACC
56565473 CAGACCCAA
1 CAGACCCAA
56565482 CCTAAATTCC
Statistics
Matches: 20, Mismatches: 5, Indels: 1
0.77 0.19 0.04
Matches are distributed among these distances:
16 5 0.25
17 15 0.75
ACGTcount: A:0.45, C:0.36, G:0.05, T:0.14
Consensus pattern (17 bp):
CAGACCCAAATTAAACC
Found at i:56566525 original size:16 final size:16
Alignment explanation
Indices: 56566504--56566539 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
56566494 ATTAGCTTAA
*
56566504 TATTATTTGTTATTAT
1 TATTATTTCTTATTAT
*
56566520 TATTATTTCTTATTGT
1 TATTATTTCTTATTAT
56566536 TATT
1 TATT
56566540 GACATTATTG
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
16 18 1.00
ACGTcount: A:0.22, C:0.03, G:0.06, T:0.69
Consensus pattern (16 bp):
TATTATTTCTTATTAT
Found at i:56566644 original size:3 final size:3
Alignment explanation
Indices: 56566636--56566683 Score: 53
Period size: 3 Copynumber: 15.3 Consensus size: 3
56566626 TTTATATATA
*
56566636 TAT TAT TAT GTAT ATAT TAT CAT CT-T TAT TAT TAT TAT TAT TAT TAT
1 TAT TAT TAT -TAT -TAT TAT TAT -TAT TAT TAT TAT TAT TAT TAT TAT
56566683 T
1 T
56566684 TCTCATGTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 6
0.81 0.06 0.12
Matches are distributed among these distances:
2 1 0.03
3 32 0.82
4 6 0.15
ACGTcount: A:0.31, C:0.04, G:0.02, T:0.62
Consensus pattern (3 bp):
TAT
Found at i:56574730 original size:19 final size:21
Alignment explanation
Indices: 56574701--56574742 Score: 61
Period size: 20 Copynumber: 2.1 Consensus size: 21
56574691 AATAGTTTGA
56574701 TTTGTTAAAAAAC-TTTTAAC
1 TTTGTTAAAAAACATTTTAAC
*
56574721 TTTGTT-AAAATCATTTTAAC
1 TTTGTTAAAAAACATTTTAAC
56574741 TT
1 TT
56574743 GATTTTCAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
19 5 0.25
20 15 0.75
ACGTcount: A:0.36, C:0.10, G:0.05, T:0.50
Consensus pattern (21 bp):
TTTGTTAAAAAACATTTTAAC
Found at i:56585869 original size:40 final size:40
Alignment explanation
Indices: 56585821--56586088 Score: 482
Period size: 40 Copynumber: 6.7 Consensus size: 40
56585811 GCAAACACAT
* * *
56585821 TTGCCTTCGGGTCTTAACCCGGACATATCAACTTGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
56585861 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
56585901 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
56585941 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
56585981 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
*
56586021 TTGCCTTCGGGTCTTAGCCCGGATATATCATCTCGCATAA
1 TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
* *
56586061 TTGCCTTCGGGTCATAACCCGGATATAT
1 TTGCCTTCGGGTCTTAGCCCGGATATAT
56586089 TCCAATGTTC
Statistics
Matches: 222, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
40 222 1.00
ACGTcount: A:0.22, C:0.27, G:0.20, T:0.31
Consensus pattern (40 bp):
TTGCCTTCGGGTCTTAGCCCGGATATATCAACTCGCATAA
Found at i:56592592 original size:27 final size:27
Alignment explanation
Indices: 56592553--56592721 Score: 196
Period size: 27 Copynumber: 6.2 Consensus size: 27
56592543 NNNNNNNNNC
* * *
56592553 AGTGCTATATAATCAACTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* *
56592580 AGTGCTACGTAATCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
56592607 AGTGCTACATAGTCAAACTCGCACACTT
1 AGTGCTACATAGTCAAA-TCGCACACTT
** * *
56592635 AGTGCCGCATGGTCAATTCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
* **
56592662 AGTGC-ATCATATTCATTTCGCACACTT
1 AGTGCTA-CATAGTCAAATCGCACACTT
*
56592689 AGTGCAACATAGTCAAATCGCACACTT
1 AGTGCTACATAGTCAAATCGCACACTT
56592716 AGTGCT
1 AGTGCT
56592722 GTACAATTTA
Statistics
Matches: 122, Mismatches: 17, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 98 0.80
28 24 0.20
ACGTcount: A:0.30, C:0.27, G:0.15, T:0.28
Consensus pattern (27 bp):
AGTGCTACATAGTCAAATCGCACACTT
Found at i:56592690 original size:82 final size:81
Alignment explanation
Indices: 56592565--56592720 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56592555 TGCTATATAA
* *
56592565 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAAACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAA-TCGCA
56592630 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
56592647 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCAAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCA
56592711 CACTTAGTGC
65 CACTTAGTGC
56592721 TGTACAATTT
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 16 0.24
82 51 0.76
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCAAATCGCAC
ACTTAGTGCCGCATGG
Found at i:56598983 original size:11 final size:11
Alignment explanation
Indices: 56598967--56598991 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
56598957 TTATTTTTTA
56598967 TTTTTTTAAAT
1 TTTTTTTAAAT
56598978 TTTTTTTAAAT
1 TTTTTTTAAAT
56598989 TTT
1 TTT
56598992 AAAATATTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.24, C:0.00, G:0.00, T:0.76
Consensus pattern (11 bp):
TTTTTTTAAAT
Found at i:56598991 original size:18 final size:18
Alignment explanation
Indices: 56598970--56599059 Score: 56
Period size: 18 Copynumber: 5.6 Consensus size: 18
56598960 TTTTTTATTT
* *
56598970 TTTTAAATTTTTTTTAAA
1 TTTTAAAATATTTTTAAA
56598988 TTTTAAAATATTTTTAAA
1 TTTTAAAATATTTTTAAA
* *
56599006 ----ATACT-TTTTT-AA
1 TTTTAAAATATTTTTAAA
56599018 TTTTAAAATATTTTTAAA
1 TTTTAAAATATTTTTAAA
* *
56599036 --AT-AAAT-TTTTTTAA
1 TTTTAAAATATTTTTAAA
56599050 TTTTAAAATA
1 TTTTAAAATA
56599060 AATTTTTGGT
Statistics
Matches: 53, Mismatches: 9, Indels: 20
0.65 0.11 0.24
Matches are distributed among these distances:
12 2 0.04
13 5 0.09
14 10 0.19
15 4 0.08
16 5 0.09
17 9 0.17
18 18 0.34
ACGTcount: A:0.41, C:0.01, G:0.00, T:0.58
Consensus pattern (18 bp):
TTTTAAAATATTTTTAAA
Found at i:56598991 original size:19 final size:19
Alignment explanation
Indices: 56598969--56599007 Score: 51
Period size: 19 Copynumber: 2.1 Consensus size: 19
56598959 ATTTTTTATT
* * *
56598969 TTTTTAAATTTTTTTTAAA
1 TTTTAAAATATTTTTAAAA
56598988 TTTTAAAATATTTTTAAAA
1 TTTTAAAATATTTTTAAAA
56599007 T
1 T
56599008 ACTTTTTTAA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (19 bp):
TTTTAAAATATTTTTAAAA
Found at i:56599014 original size:30 final size:31
Alignment explanation
Indices: 56598979--56599059 Score: 128
Period size: 30 Copynumber: 2.6 Consensus size: 31
56598969 TTTTTAAATT
56598979 TTTTTTAAATTTTAAAATATTTTTAAAAT-AC
1 TTTTTT-AATTTTAAAATATTTTTAAAATAAC
*
56599010 TTTTTTAATTTTAAAATATTTTTAAAATAAAT
1 TTTTTTAATTTTAAAATATTTTTAAAAT-AAC
56599042 TTTTTTAATTTTAAAATA
1 TTTTTTAATTTTAAAATA
56599060 AATTTTTGGT
Statistics
Matches: 47, Mismatches: 1, Indels: 3
0.92 0.02 0.06
Matches are distributed among these distances:
30 22 0.47
31 6 0.13
32 19 0.40
ACGTcount: A:0.42, C:0.01, G:0.00, T:0.57
Consensus pattern (31 bp):
TTTTTTAATTTTAAAATATTTTTAAAATAAC
Found at i:56599020 original size:20 final size:18
Alignment explanation
Indices: 56598999--56599059 Score: 67
Period size: 15 Copynumber: 3.6 Consensus size: 18
56598989 TTTAAAATAT
56598999 TTTTAAAATACTTTTTTAA
1 TTTTAAAATA-TTTTTTAA
56599018 TTTTAAAATA-TTTTTAA
1 TTTTAAAATATTTTTTAA
**
56599035 -AAT-AAAT-TTTTTTAA
1 TTTTAAAATATTTTTTAA
56599050 TTTTAAAATA
1 TTTTAAAATA
56599060 AATTTTTGGT
Statistics
Matches: 34, Mismatches: 4, Indels: 9
0.72 0.09 0.19
Matches are distributed among these distances:
15 11 0.32
16 2 0.06
17 11 0.32
19 10 0.29
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.56
Consensus pattern (18 bp):
TTTTAAAATATTTTTTAA
Found at i:56599045 original size:13 final size:11
Alignment explanation
Indices: 56598988--56599038 Score: 56
Period size: 11 Copynumber: 4.9 Consensus size: 11
56598978 TTTTTTTAAA
56598988 TTTTAAAATAT
1 TTTTAAAATAT
56598999 TTTTAAAATACT
1 TTTTAAAATA-T
*
56599011 TTTT----TAA
1 TTTTAAAATAT
56599018 TTTTAAAATAT
1 TTTTAAAATAT
56599029 TTTTAAAATA
1 TTTTAAAATA
56599039 AATTTTTTTA
Statistics
Matches: 33, Mismatches: 2, Indels: 10
0.73 0.04 0.22
Matches are distributed among these distances:
7 4 0.12
8 2 0.06
11 22 0.67
12 5 0.15
ACGTcount: A:0.43, C:0.02, G:0.00, T:0.55
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:56622223 original size:42 final size:42
Alignment explanation
Indices: 56622176--56622297 Score: 131
Period size: 42 Copynumber: 2.9 Consensus size: 42
56622166 ACTCCAATAT
* *
56622176 GTGATTTCGTATAAGACCATGTCTGGGATGTTGGCATCGTATA
1 GTGATTTCGTGTAAGACCATGTCTGGGAAGTTGGCATCG-ATA
* *
56622219 -TGATTTTGTGTAAGACCCTGTCTGGGACAG-TGGCATCGATA
1 GTGATTTCGTGTAAGACCATGTCTGGGA-AGTTGGCATCGATA
* * * *
56622260 GTTGATTACATGTAAGACCATGTTTGGGACGTTGGCAT
1 G-TGATTTCGTGTAAGACCATGTCTGGGAAGTTGGCAT
56622298 TGTACGAGCT
Statistics
Matches: 65, Mismatches: 10, Indels: 8
0.78 0.12 0.10
Matches are distributed among these distances:
41 3 0.05
42 33 0.51
43 29 0.45
ACGTcount: A:0.23, C:0.15, G:0.29, T:0.34
Consensus pattern (42 bp):
GTGATTTCGTGTAAGACCATGTCTGGGAAGTTGGCATCGATA
Found at i:56629857 original size:21 final size:19
Alignment explanation
Indices: 56629828--56629872 Score: 54
Period size: 21 Copynumber: 2.3 Consensus size: 19
56629818 CAAGTTGTTA
*
56629828 GATTATTATGTTTAATTAAG
1 GATTATTATGTGT-ATTAAG
*
56629848 TGATTTTTATGTGTATTAAG
1 -GATTATTATGTGTATTAAG
56629868 GATTA
1 GATTA
56629873 AATTGTGAAT
Statistics
Matches: 21, Mismatches: 3, Indels: 2
0.81 0.12 0.08
Matches are distributed among these distances:
19 4 0.19
20 6 0.29
21 11 0.52
ACGTcount: A:0.31, C:0.00, G:0.18, T:0.51
Consensus pattern (19 bp):
GATTATTATGTGTATTAAG
Found at i:56629939 original size:457 final size:459
Alignment explanation
Indices: 56629324--56630236 Score: 1598
Period size: 457 Copynumber: 2.0 Consensus size: 459
56629314 AGAAATTGTT
*
56629324 GTTTTTGTTGTTTGATGATGGAAAATAAAATAAGTTGTTAGATTATTATGTTTAATTAAGTGATT
1 GTTTTTGTTGTTTGATGATGGAAAATAAAACAAGTTGTTAGATTATTATGTTTAATTAAGTGATT
*
56629389 TTTAGTAAAAATGTGTATTAAGGATTAAATTGTGACTTTTGTAAATTGAGGGGTCAAAATATAAA
66 TTTA-T---AATGTGTATTAAGGATTAAATTGTGAATTTTGTAAATTGAGGGGTCAAAATATAAA
* * *
56629454 AGAAATTAAATAAATTGGCTGCTATGAACCTTAGTAAAATTTGGCTATATTTGAGTTTGGTGAAA
127 AGAAATGAAATAAATGGGCTGCTATGAACCTTAGTAAAATTCGGCTATATTTGAGTTTGGTGAAA
56629519 TTTTGAATATTTTCTGTTTTGTGAAATAAGGACTAAATTGTGAAAAATGTAAAATGTTAGGGGAT
192 TTTTGAATATTTTCTGTTTTGTGAAATAAGGACTAAATTGTGAAAAATGTAAAATGTTAGGGGAT
*
56629584 AAAGTGCTAATTTCCCTTTTACATGGTTTTGGATGAATTTGAGTAAATATGTGATTAAATAAGTT
257 AAAGTGCTAATTGCCCTTTTACATGGTTTTGGATGAATTTGAGTAAATATGTGATTAAATAAGTT
56629649 AAATTTGTATTAAATTAGATCAAGAAAAGAGGAAATTAAATTTGGATCGGGGGAAATCAAAAGTT
322 AAATTTGTATTAAATTAGATCAAGAAAAGAGGAAATTAAATTTGGATCGGGGGAAATCAAAAGTT
* *
56629714 GTTGATTAGTCGTTCCGGTTCGTTCGTCTCCGCACAAGGTAAGTTCATAAGTGAATAAATGATGT
387 GTCGATTAGTCGTTCCGGTTCATTCGTCTCCGCACAAGGTAAGTTCATAAGTGAATAAATGATGT
56629779 TTAATTAA
452 TTAATTAA
56629787 GTTTTTGTTGTTTGATGATGGAAAATAAAAACAAGTTGTTAGATTATTATGTTTAATTAAGTGA-
1 GTTTTTGTTGTTTGATGATGGAAAAT-AAAACAAGTTGTTAGATTATTATGTTTAATTAAGTGAT
*
56629851 TTTT-T-ATGTGTATTAAGGATTAAATTGTGAATTTTGTAAATTGAGGGGTCAAAATATAAAATA
65 TTTTATAATGTGTATTAAGGATTAAATTGTGAATTTTGTAAATTGAGGGGTCAAAATATAAAAGA
*
56629914 AATGAAATAAATGGGCTGTTATGAACCTTAGTAAAATTCGGCTATATTTGAGTTTGGTGAAATTT
130 AATGAAATAAATGGGCTGCTATGAACCTTAGTAAAATTCGGCTATATTTGAGTTTGGTGAAATTT
*
56629979 TGAATATTTTCTGTTTTGTGAAATAATGACTAAATTGTGAAAAATGTAAAATGTTAGGGGATAAA
195 TGAATATTTTCTGTTTTGTGAAATAAGGACTAAATTGTGAAAAATGTAAAATGTTAGGGGATAAA
* **
56630044 GTGCTTATTGCCCTTTTATGTGGTTTTGGATGAATTTGAGTAAATATGTGATTAAATAAGTTAAA
260 GTGCTAATTGCCCTTTTACATGGTTTTGGATGAATTTGAGTAAATATGTGATTAAATAAGTTAAA
* *
56630109 TTTGTATTAAATTAGATCAAGAAAAGAGGAAATTGAATTTGGATTGGGGGAAATCAAAAGTTGTC
325 TTTGTATTAAATTAGATCAAGAAAAGAGGAAATTAAATTTGGATCGGGGGAAATCAAAAGTTGTC
* *
56630174 GATTAGTCGTTTCGGTTCATTCGTCTCCGCACGAGGTAAGTTCATAAGTGAATAAATGATGTT
390 GATTAGTCGTTCCGGTTCATTCGTCTCCGCACAAGGTAAGTTCATAAGTGAATAAATGATGTT
56630237 AAACTGAATG
Statistics
Matches: 431, Mismatches: 18, Indels: 8
0.94 0.04 0.02
Matches are distributed among these distances:
457 364 0.84
461 1 0.00
463 30 0.07
464 36 0.08
ACGTcount: A:0.35, C:0.06, G:0.21, T:0.38
Consensus pattern (459 bp):
GTTTTTGTTGTTTGATGATGGAAAATAAAACAAGTTGTTAGATTATTATGTTTAATTAAGTGATT
TTTATAATGTGTATTAAGGATTAAATTGTGAATTTTGTAAATTGAGGGGTCAAAATATAAAAGAA
ATGAAATAAATGGGCTGCTATGAACCTTAGTAAAATTCGGCTATATTTGAGTTTGGTGAAATTTT
GAATATTTTCTGTTTTGTGAAATAAGGACTAAATTGTGAAAAATGTAAAATGTTAGGGGATAAAG
TGCTAATTGCCCTTTTACATGGTTTTGGATGAATTTGAGTAAATATGTGATTAAATAAGTTAAAT
TTGTATTAAATTAGATCAAGAAAAGAGGAAATTAAATTTGGATCGGGGGAAATCAAAAGTTGTCG
ATTAGTCGTTCCGGTTCATTCGTCTCCGCACAAGGTAAGTTCATAAGTGAATAAATGATGTTTAA
TTAA
Found at i:56637178 original size:6 final size:6
Alignment explanation
Indices: 56637164--56637206 Score: 59
Period size: 6 Copynumber: 6.8 Consensus size: 6
56637154 AAGTTTCTCA
*
56637164 AAATGG AAATCG AAATGG AAATGG AAATGAG AAATGAG AAATG
1 AAATGG AAATGG AAATGG AAATGG AAATG-G AAATG-G AAATG
56637207 ATACATTTGC
Statistics
Matches: 34, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
6 21 0.62
7 13 0.38
ACGTcount: A:0.53, C:0.02, G:0.28, T:0.16
Consensus pattern (6 bp):
AAATGG
Found at i:56637199 original size:7 final size:7
Alignment explanation
Indices: 56637175--56637207 Score: 52
Period size: 7 Copynumber: 5.0 Consensus size: 7
56637165 AATGGAAATC
56637175 GAAATG-
1 GAAATGA
56637181 GAAATG-
1 GAAATGA
56637187 GAAATGA
1 GAAATGA
56637194 GAAATGA
1 GAAATGA
56637201 GAAATGA
1 GAAATGA
56637208 TACATTTGCA
Statistics
Matches: 26, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 12 0.46
7 14 0.54
ACGTcount: A:0.55, C:0.00, G:0.30, T:0.15
Consensus pattern (7 bp):
GAAATGA
Found at i:56644221 original size:26 final size:26
Alignment explanation
Indices: 56644190--56644337 Score: 170
Period size: 26 Copynumber: 5.6 Consensus size: 26
56644180 CAGAGTTTGG
* * *
56644190 CACAAAGTCTTTCCTTCATATTACGC
1 CACAAAGGCTTTCCTTCATTTTATGC
* *
56644216 CACAAAGGCTTTCTTTCATTTTATGT
1 CACAAAGGCTTTCCTTCATTTTATGC
* *
56644242 CACAAAGGCTTTCTTTCATTTTACGC
1 CACAAAGGCTTTCCTTCATTTTATGC
* *
56644268 CACAAAGGCGTTCCTTTCATTTTATGT
1 CACAAAGGCTTTCC-TTCATTTTATGC
* *
56644295 CATAAAGGCGTTCCTTTCATTTTATGC
1 CACAAAGGCTTTCC-TTCATTTTATGC
*
56644322 CACAAAGGCATTCCTT
1 CACAAAGGCTTTCCTT
56644338 TCCTGATGTG
Statistics
Matches: 106, Mismatches: 15, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
26 59 0.56
27 47 0.44
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (26 bp):
CACAAAGGCTTTCCTTCATTTTATGC
Found at i:56644254 original size:52 final size:53
Alignment explanation
Indices: 56644190--56644339 Score: 212
Period size: 52 Copynumber: 2.8 Consensus size: 53
56644180 CAGAGTTTGG
* * *
56644190 CACAAAGTCTTTCCTTCATATTACGCCACAAAGGC-TTTCTTTCATTTTATGT
1 CACAAAGGCTTTCCTTCATTTTACGCCACAAAGGCATTCCTTTCATTTTATGT
* *
56644242 CACAAAGGCTTTCTTTCATTTTACGCCACAAAGGCGTTCCTTTCATTTTATGT
1 CACAAAGGCTTTCCTTCATTTTACGCCACAAAGGCATTCCTTTCATTTTATGT
* * *
56644295 CATAAAGGCGTTCCTTTCATTTTATGCCACAAAGGCATTCCTTTC
1 CACAAAGGCTTTCC-TTCATTTTACGCCACAAAGGCATTCCTTTC
56644340 CTGATGTGTT
Statistics
Matches: 87, Mismatches: 9, Indels: 2
0.89 0.09 0.02
Matches are distributed among these distances:
52 32 0.37
53 27 0.31
54 28 0.32
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (53 bp):
CACAAAGGCTTTCCTTCATTTTACGCCACAAAGGCATTCCTTTCATTTTATGT
Found at i:56644290 original size:27 final size:26
Alignment explanation
Indices: 56644190--56644339 Score: 176
Period size: 27 Copynumber: 5.7 Consensus size: 26
56644180 CAGAGTTTGG
* * *
56644190 CACAAAGTCTTTCC-TTCATATTACGC
1 CACAAAGGC-TTCCTTTCATTTTATGC
* *
56644216 CACAAAGGCTTTCTTTCATTTTATGT
1 CACAAAGGCTTCCTTTCATTTTATGC
* *
56644242 CACAAAGGCTTTCTTTCATTTTACGC
1 CACAAAGGCTTCCTTTCATTTTATGC
*
56644268 CACAAAGGCGTTCCTTTCATTTTATGT
1 CACAAAGGC-TTCCTTTCATTTTATGC
*
56644295 CATAAAGGCGTTCCTTTCATTTTATGC
1 CACAAAGGC-TTCCTTTCATTTTATGC
56644322 CACAAAGGCATTCCTTTC
1 CACAAAGGC-TTCCTTTC
56644340 CTGATGTGTT
Statistics
Matches: 108, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
25 3 0.03
26 50 0.46
27 55 0.51
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (26 bp):
CACAAAGGCTTCCTTTCATTTTATGC
Found at i:56644330 original size:54 final size:52
Alignment explanation
Indices: 56644190--56644339 Score: 203
Period size: 54 Copynumber: 2.8 Consensus size: 52
56644180 CAGAGTTTGG
* * *
56644190 CACAAAGTCTTTCC-TTCATATTACGCCACAAAGGCTTTCTTTCATTTTATGT
1 CACAAAGGC-TTCCTTTCATTTTACGCCACAAAGGCTTCCTTTCATTTTATGT
*
56644242 CACAAAGGCTTTCTTTCATTTTACGCCACAAAGGCGTTCCTTTCATTTTATGT
1 CACAAAGGCTTCCTTTCATTTTACGCCACAAAGGC-TTCCTTTCATTTTATGT
* *
56644295 CATAAAGGCGTTCCTTTCATTTTATGCCACAAAGGCATTCCTTTC
1 CACAAAGGC-TTCCTTTCATTTTACGCCACAAAGGC-TTCCTTTC
56644340 CTGATGTGTT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
51 3 0.03
52 28 0.32
53 24 0.28
54 32 0.37
ACGTcount: A:0.24, C:0.25, G:0.12, T:0.39
Consensus pattern (52 bp):
CACAAAGGCTTCCTTTCATTTTACGCCACAAAGGCTTCCTTTCATTTTATGT
Found at i:56650916 original size:12 final size:12
Alignment explanation
Indices: 56650881--56650918 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
56650871 TCATTTTGCA
56650881 AGAAAAATAATC
1 AGAAAAATAATC
*
56650893 AGCCAAAA-AATC
1 AG-AAAAATAATC
56650905 AGAAAAATAATC
1 AGAAAAATAATC
56650917 AG
1 AG
56650919 TGCTCGGTTG
Statistics
Matches: 22, Mismatches: 2, Indels: 4
0.79 0.07 0.14
Matches are distributed among these distances:
11 4 0.18
12 14 0.64
13 4 0.18
ACGTcount: A:0.63, C:0.13, G:0.11, T:0.13
Consensus pattern (12 bp):
AGAAAAATAATC
Found at i:56657247 original size:17 final size:17
Alignment explanation
Indices: 56657227--56657259 Score: 57
Period size: 17 Copynumber: 1.9 Consensus size: 17
56657217 AACAAAAAAT
*
56657227 AAAATTTAAAATCAAAC
1 AAAATTTAAAAGCAAAC
56657244 AAAATTTAAAAGCAAA
1 AAAATTTAAAAGCAAA
56657260 GTCCTTTTTT
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.67, C:0.09, G:0.03, T:0.21
Consensus pattern (17 bp):
AAAATTTAAAAGCAAAC
Found at i:56658813 original size:18 final size:19
Alignment explanation
Indices: 56658782--56658818 Score: 51
Period size: 18 Copynumber: 2.0 Consensus size: 19
56658772 AAATCAAAAT
56658782 ATTAATTAAACT-AATTAA
1 ATTAATTAAACTAAATTAA
56658800 ATTAA-TAAACCTAAATTAA
1 ATTAATTAAA-CTAAATTAA
56658819 CCTAATGGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 3
0.85 0.00 0.15
Matches are distributed among these distances:
17 4 0.24
18 7 0.41
19 6 0.35
ACGTcount: A:0.57, C:0.08, G:0.00, T:0.35
Consensus pattern (19 bp):
ATTAATTAAACTAAATTAA
Found at i:56659649 original size:20 final size:20
Alignment explanation
Indices: 56659624--56659697 Score: 94
Period size: 20 Copynumber: 3.6 Consensus size: 20
56659614 ACATCCAGGA
56659624 TATGGCTCAACATAGGTTGC
1 TATGGCTCAACATAGGTTGC
*
56659644 TATGGCTCAACACAGGGTTTGC
1 TATGGCTCAACATA-GG-TTGC
* * *
56659666 TATTGCTCAACATAAGTTGT
1 TATGGCTCAACATAGGTTGC
56659686 TATGGCTCAACA
1 TATGGCTCAACA
56659698 CAAGGTGCAT
Statistics
Matches: 46, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
20 27 0.59
21 3 0.07
22 16 0.35
ACGTcount: A:0.27, C:0.20, G:0.22, T:0.31
Consensus pattern (20 bp):
TATGGCTCAACATAGGTTGC
Found at i:56664124 original size:19 final size:19
Alignment explanation
Indices: 56664078--56664130 Score: 54
Period size: 19 Copynumber: 2.7 Consensus size: 19
56664068 TATTAATCTA
56664078 TTCATTTTTTATTTTAATATT
1 TTCA-TTTTTA-TTTAATATT
*
56664099 TTTATTTTTATTTAAT-TT
1 TTCATTTTTATTTAATATT
*
56664117 TTACATTTTAATTT
1 TT-CATTTTTATTT
56664131 TTCGTTTGTT
Statistics
Matches: 28, Mismatches: 3, Indels: 4
0.80 0.09 0.11
Matches are distributed among these distances:
18 4 0.14
19 15 0.54
20 6 0.21
21 3 0.11
ACGTcount: A:0.25, C:0.04, G:0.00, T:0.72
Consensus pattern (19 bp):
TTCATTTTTATTTAATATT
Found at i:56668893 original size:47 final size:47
Alignment explanation
Indices: 56668839--56668932 Score: 179
Period size: 47 Copynumber: 2.0 Consensus size: 47
56668829 CTTCTTTAGT
*
56668839 TAATTAATTTAGTTAATTTTATTTTGAATCAATCACTGCAATTTGTC
1 TAATTAATTTAGTTAATTTTAGTTTGAATCAATCACTGCAATTTGTC
56668886 TAATTAATTTAGTTAATTTTAGTTTGAATCAATCACTGCAATTTGTC
1 TAATTAATTTAGTTAATTTTAGTTTGAATCAATCACTGCAATTTGTC
56668933 AGTTAAATAA
Statistics
Matches: 46, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
47 46 1.00
ACGTcount: A:0.32, C:0.11, G:0.10, T:0.48
Consensus pattern (47 bp):
TAATTAATTTAGTTAATTTTAGTTTGAATCAATCACTGCAATTTGTC
Found at i:56669141 original size:18 final size:19
Alignment explanation
Indices: 56669120--56669155 Score: 56
Period size: 18 Copynumber: 1.9 Consensus size: 19
56669110 ACTCGTTTAG
*
56669120 TTTTCTTTTTCCA-TTTTT
1 TTTTCGTTTTCCACTTTTT
56669138 TTTTCGTTTTCCACTTTT
1 TTTTCGTTTTCCACTTTT
56669156 AAACTAACCT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.06, C:0.19, G:0.03, T:0.72
Consensus pattern (19 bp):
TTTTCGTTTTCCACTTTTT
Found at i:56673763 original size:51 final size:51
Alignment explanation
Indices: 56673598--56673784 Score: 159
Period size: 51 Copynumber: 3.7 Consensus size: 51
56673588 AGTGAAAGTG
* * *
56673598 ATGGTCACGTGTGTAGTACTATGTGCAGACTACTACGTGTACCAGAATGATA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGAATGGTA
* * * * * * *
56673650 GAT--T-GCATGTGTAGTACTATGTGCAAGCTACTATGCGTACTGGATAGT-
1 -ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGAATGGTA
* * ** *
56673698 TTCGATCATGTGTGTAGTACTATGTGCAGGCTACTACATGTATC-GAATGGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTA-CAGAATGGTA
*
56673750 ATGGTCACATGTGTAGCACTATGTGCAGGCTACTA
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTA
56673785 TGTGAATCGA
Statistics
Matches: 103, Mismatches: 25, Indels: 14
0.73 0.18 0.10
Matches are distributed among these distances:
47 1 0.01
49 5 0.05
50 30 0.29
51 63 0.61
52 2 0.02
53 2 0.02
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.32
Consensus pattern (51 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTACGTGTACAGAATGGTA
Found at i:56673859 original size:45 final size:45
Alignment explanation
Indices: 56673795--56673882 Score: 158
Period size: 45 Copynumber: 2.0 Consensus size: 45
56673785 TGTGAATCGA
* *
56673795 ACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCCACCGG
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
56673840 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
1 ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACC
56673883 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 41 1.00
ACGTcount: A:0.25, C:0.18, G:0.24, T:0.33
Consensus pattern (45 bp):
ACATCATTGATTAATAAGGTGGTTGCTATGTGCTGAATCCACCGG
Done.