Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: A03
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: 108673976
ACGTcount: A:0.31, C:0.17, G:0.16, T:0.31
Warning! 5040000 characters in sequence are not A, C, G, or T
File 45 of 333
Found at i:12906542 original size:23 final size:23
Alignment explanation
Indices: 12906452--12906588 Score: 111
Period size: 23 Copynumber: 5.9 Consensus size: 23
12906442 AAGCTCCTCC
12906452 TGAGCTGATAAACAGTAAGCT-TTAT
1 TGAGCTG--AAACAGTAAGCTCTT-T
* *
12906477 TGAGCTGAAA-ATGGTCAGCTCTAT
1 TGAGCTGAAACA--GTAAGCTCTTT
12906501 TGAGCTG-AACAGTAAGCTCTTT
1 TGAGCTGAAACAGTAAGCTCTTT
* * ***
12906523 TGAGCTGAATCTGTAAGCTCCAA
1 TGAGCTGAAACAGTAAGCTCTTT
12906546 TGAGCTGAAACAGTAAGCT-TTT
1 TGAGCTGAAACAGTAAGCTCTTT
* *
12906568 ACGAGCTGAATCAGTAAGCTC
1 -TGAGCTGAAACAGTAAGCTC
12906589 ATACGAGCTG
Statistics
Matches: 89, Mismatches: 16, Indels: 15
0.74 0.13 0.12
Matches are distributed among these distances:
22 17 0.19
23 49 0.55
24 15 0.17
25 8 0.09
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (23 bp):
TGAGCTGAAACAGTAAGCTCTTT
Found at i:12906578 original size:46 final size:46
Alignment explanation
Indices: 12906452--12906588 Score: 145
Period size: 46 Copynumber: 2.9 Consensus size: 46
12906442 AAGCTCCTCC
** * * *
12906452 TGAGCTGATAAACAGTAAGC-TTTATTGAGCTGAAAATGGTCAGCTCTAT
1 TGAGCTG--AAACAGTAAGCTTTTA-TGAGCTGAATCT-GTAAGCTCCAA
12906501 TGAGCTG-AACAGTAAGCTCTTT-TGAGCTGAATCTGTAAGCTCCAA
1 TGAGCTGAAACAGTAAGCT-TTTATGAGCTGAATCTGTAAGCTCCAA
* *
12906546 TGAGCTGAAACAGTAAGCTTTTACGAGCTGAATCAGTAAGCTC
1 TGAGCTGAAACAGTAAGCTTTTATGAGCTGAATCTGTAAGCTC
12906589 ATACGAGCTG
Statistics
Matches: 77, Mismatches: 7, Indels: 11
0.81 0.07 0.12
Matches are distributed among these distances:
45 18 0.23
46 49 0.64
48 3 0.04
49 7 0.09
ACGTcount: A:0.31, C:0.18, G:0.23, T:0.28
Consensus pattern (46 bp):
TGAGCTGAAACAGTAAGCTTTTATGAGCTGAATCTGTAAGCTCCAA
Found at i:12906593 original size:23 final size:23
Alignment explanation
Indices: 12906502--12906598 Score: 99
Period size: 23 Copynumber: 4.3 Consensus size: 23
12906492 CAGCTCTATT
* **
12906502 GAGCTGAA-CAGTAAGCTCTTTT
1 GAGCTGAATCAGTAAGCTCATAC
* *
12906524 GAGCTGAATCTGTAAGCTCCA-AT
1 GAGCTGAATCAGTAAGCT-CATAC
* **
12906547 GAGCTGAAACAGTAAGCTTTTAC
1 GAGCTGAATCAGTAAGCTCATAC
12906570 GAGCTGAATCAGTAAGCTCATAC
1 GAGCTGAATCAGTAAGCTCATAC
12906593 GAGCTG
1 GAGCTG
12906599 TGGTGAGTCC
Statistics
Matches: 61, Mismatches: 11, Indels: 5
0.79 0.14 0.06
Matches are distributed among these distances:
22 8 0.13
23 52 0.85
24 1 0.02
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (23 bp):
GAGCTGAATCAGTAAGCTCATAC
Found at i:12906597 original size:46 final size:45
Alignment explanation
Indices: 12906502--12906598 Score: 126
Period size: 46 Copynumber: 2.1 Consensus size: 45
12906492 CAGCTCTATT
* * *
12906502 GAGCTGAACAGTAAGCTCTTTTGAGCTGAATCTGTAAGCTCCAAT
1 GAGCTGAACAGTAAGCTCTTTCGAGCTGAATCAGTAAGCTCCAAC
12906547 GAGCTGAAACAGTAAGCT-TTTACGAGCTGAATCAGTAAGCT-CATAC
1 GAGCTG-AACAGTAAGCTCTTT-CGAGCTGAATCAGTAAGCTCCA-AC
12906593 GAGCTG
1 GAGCTG
12906599 TGGTGAGTCC
Statistics
Matches: 46, Mismatches: 3, Indels: 5
0.85 0.06 0.09
Matches are distributed among these distances:
45 11 0.24
46 35 0.76
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.26
Consensus pattern (45 bp):
GAGCTGAACAGTAAGCTCTTTCGAGCTGAATCAGTAAGCTCCAAC
Found at i:12909474 original size:13 final size:13
Alignment explanation
Indices: 12909447--12909479 Score: 50
Period size: 13 Copynumber: 2.6 Consensus size: 13
12909437 CCAATCTTTG
12909447 ATTTA-TTATCCT
1 ATTTATTTATCCT
*
12909459 ATTTATTTATCTT
1 ATTTATTTATCCT
12909472 ATTTATTT
1 ATTTATTT
12909480 GTTTGTTTGT
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 5 0.26
13 14 0.74
ACGTcount: A:0.24, C:0.09, G:0.00, T:0.67
Consensus pattern (13 bp):
ATTTATTTATCCT
Found at i:12910339 original size:7 final size:7
Alignment explanation
Indices: 12910327--12910357 Score: 53
Period size: 7 Copynumber: 4.4 Consensus size: 7
12910317 TGAGAGTGAA
12910327 AGAAAAG
1 AGAAAAG
12910334 AGAAAAG
1 AGAAAAG
12910341 AGAAAAG
1 AGAAAAG
*
12910348 AGAGAAG
1 AGAAAAG
12910355 AGA
1 AGA
12910358 TGGTGAATAA
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
7 23 1.00
ACGTcount: A:0.68, C:0.00, G:0.32, T:0.00
Consensus pattern (7 bp):
AGAAAAG
Found at i:12916506 original size:54 final size:53
Alignment explanation
Indices: 12916424--12916560 Score: 211
Period size: 54 Copynumber: 2.5 Consensus size: 53
12916414 AGCGTCCTGG
* *
12916424 TGGCTATGCCACAATTATCTGATCTGGTGGCTCTTCCACATATATCTGTTCTGA
1 TGGCTCTGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGA
*
12916478 TGGCTCTGCCACGATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGG
1 TGGCTCTGCCAC-ATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGA
*
12916532 TGGCTCTGCCACAATATCTGTATCTGGTG
1 TGGCTCTGCCACATTATCTG-ATCTGGTG
12916561 ACTTCGTCAC
Statistics
Matches: 77, Mismatches: 5, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
53 7 0.09
54 70 0.91
ACGTcount: A:0.18, C:0.25, G:0.22, T:0.36
Consensus pattern (53 bp):
TGGCTCTGCCACATTATCTGATCTGGTGGCTCTGCCACATATATCTGTTCTGA
Found at i:12916571 original size:27 final size:27
Alignment explanation
Indices: 12916420--12916578 Score: 184
Period size: 27 Copynumber: 5.9 Consensus size: 27
12916410 AGGAAGCGTC
*
12916420 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
*
12916447 CTGGTGGCTCTTCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
* *
12916474 CTGATGGCTCTGCCACGATTATCTG-AT
1 CTGGTGGCTCTGCCAC-AATATCTGTAT
12916501 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
12916528 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
12916555 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
12916579 GCAGCCTCGC
Statistics
Matches: 115, Mismatches: 9, Indels: 16
0.82 0.06 0.11
Matches are distributed among these distances:
26 10 0.09
27 103 0.90
28 2 0.02
ACGTcount: A:0.18, C:0.25, G:0.21, T:0.35
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:12927185 original size:19 final size:19
Alignment explanation
Indices: 12927161--12927222 Score: 106
Period size: 19 Copynumber: 3.2 Consensus size: 19
12927151 AATCTTTAAG
12927161 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
12927180 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
12927199 GATATGCAATCTTGAAGATAT
1 GATATGCAATCTT--AGATAT
12927220 GAT
1 GAT
12927223 CTTGTAATCT
Statistics
Matches: 41, Mismatches: 0, Indels: 2
0.95 0.00 0.05
Matches are distributed among these distances:
19 32 0.78
21 9 0.22
ACGTcount: A:0.37, C:0.10, G:0.18, T:0.35
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:12927595 original size:19 final size:19
Alignment explanation
Indices: 12927571--12927614 Score: 52
Period size: 19 Copynumber: 2.3 Consensus size: 19
12927561 TTAACCTTTT
*
12927571 TATATAGTTTATTTTCAAA
1 TATATAGTTTATTTGCAAA
* * *
12927590 TATATATTTTCTTTGCATA
1 TATATAGTTTATTTGCAAA
12927609 TATATA
1 TATATA
12927615 TTATATTATC
Statistics
Matches: 21, Mismatches: 4, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.34, C:0.07, G:0.05, T:0.55
Consensus pattern (19 bp):
TATATAGTTTATTTGCAAA
Found at i:12931001 original size:4 final size:4
Alignment explanation
Indices: 12930992--12931031 Score: 71
Period size: 4 Copynumber: 10.0 Consensus size: 4
12930982 CATCTGACTG
*
12930992 CATA CATA CATA CATA CATA CATA CATG CATA CATA CATA
1 CATA CATA CATA CATA CATA CATA CATA CATA CATA CATA
12931032 TGCATAAAAT
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
4 34 1.00
ACGTcount: A:0.47, C:0.25, G:0.03, T:0.25
Consensus pattern (4 bp):
CATA
Found at i:12931317 original size:92 final size:93
Alignment explanation
Indices: 12931150--12931322 Score: 224
Period size: 92 Copynumber: 1.9 Consensus size: 93
12931140 CCGATATCGG
* * * **
12931150 TATAGCAGATTATCGTATTGCACTGTACTGCATGTACATTAGCTACGCTGCGTACCTTTCATTGA
1 TATAGCAGATTACCGCATTGCACTGTACTGCATGTACATTAGCTACGCTACGTACCACTCATTGA
* *
12931215 ACTGGTAGTTT-TACTGCAACCTATCAA
66 ACAGGCAGTTTATACTGCAACCTATCAA
* * *
12931242 TATAGCGGATTACCGCATTGCACTGTACTGCATGTACGTTAGCTACGCTATGTACCACT-ATCTG
1 TATAGCAGATTACCGCATTGCACTGTACTGCATGTACATTAGCTACGCTACGTACCACTCAT-TG
*
12931306 ATCAGGCAGTTTATACT
65 AACAGGCAGTTTATACT
12931323 ACATGTCTGT
Statistics
Matches: 68, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
91 2 0.03
92 62 0.91
93 4 0.06
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.34
Consensus pattern (93 bp):
TATAGCAGATTACCGCATTGCACTGTACTGCATGTACATTAGCTACGCTACGTACCACTCATTGA
ACAGGCAGTTTATACTGCAACCTATCAA
Found at i:12931684 original size:12 final size:12
Alignment explanation
Indices: 12931644--12931685 Score: 57
Period size: 12 Copynumber: 3.4 Consensus size: 12
12931634 TATGCATCAT
12931644 ATTGACTGTTTG
1 ATTGACTGTTTG
* *
12931656 ATTGAAATGTCTG
1 ATTG-ACTGTTTG
12931669 ATTGACTGTTTG
1 ATTGACTGTTTG
12931681 ATTGA
1 ATTGA
12931686 AAGGCACTTG
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
12 15 0.60
13 10 0.40
ACGTcount: A:0.24, C:0.07, G:0.24, T:0.45
Consensus pattern (12 bp):
ATTGACTGTTTG
Found at i:12932642 original size:7 final size:7
Alignment explanation
Indices: 12932626--12932675 Score: 50
Period size: 7 Copynumber: 7.1 Consensus size: 7
12932616 ATCCAATACT
*
12932626 TATCACA
1 TATCAAA
12932633 TATCAAA
1 TATCAAA
12932640 TATCAAA
1 TATCAAA
12932647 TATCAAACA
1 TATC-AA-A
12932656 TAT-AAA
1 TATCAAA
*
12932662 -ATCACA
1 TATCAAA
12932668 TATCAAA
1 TATCAAA
12932675 T
1 T
12932676 TTGCATTTAA
Statistics
Matches: 36, Mismatches: 3, Indels: 8
0.77 0.06 0.17
Matches are distributed among these distances:
5 2 0.06
6 3 0.08
7 25 0.69
8 2 0.06
9 4 0.11
ACGTcount: A:0.54, C:0.18, G:0.00, T:0.28
Consensus pattern (7 bp):
TATCAAA
Found at i:12932673 original size:21 final size:23
Alignment explanation
Indices: 12932630--12932674 Score: 67
Period size: 21 Copynumber: 2.0 Consensus size: 23
12932620 AATACTTATC
12932630 ACATATCAAATATCAAATATCAA
1 ACATATCAAATATCAAATATCAA
*
12932653 ACATAT-AAA-ATCACATATCAA
1 ACATATCAAATATCAAATATCAA
12932674 A
1 A
12932675 TTTGCATTTA
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
21 12 0.57
22 3 0.14
23 6 0.29
ACGTcount: A:0.58, C:0.18, G:0.00, T:0.24
Consensus pattern (23 bp):
ACATATCAAATATCAAATATCAA
Found at i:12932799 original size:30 final size:30
Alignment explanation
Indices: 12932758--12932814 Score: 96
Period size: 30 Copynumber: 1.9 Consensus size: 30
12932748 ACGGGAATAA
*
12932758 GTTGTTCACACAAGCTGACAATATATTAGG
1 GTTGCTCACACAAGCTGACAATATATTAGG
*
12932788 GTTGCTCACACAAGCTGACAGTATATT
1 GTTGCTCACACAAGCTGACAATATATT
12932815 GAGGTTACTC
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:0.32, C:0.19, G:0.19, T:0.30
Consensus pattern (30 bp):
GTTGCTCACACAAGCTGACAATATATTAGG
Found at i:12935577 original size:26 final size:26
Alignment explanation
Indices: 12935546--12935653 Score: 171
Period size: 26 Copynumber: 4.2 Consensus size: 26
12935536 TGAAATGCCC
*
12935546 ATCATGGAACATTTACCTAAACCATT
1 ATCATGGAACATTTACCTAACCCATT
*
12935572 ATCATGAAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
* *
12935598 ATCATGGAATATTTACCTAATCCATT
1 ATCATGGAACATTTACCTAACCCATT
*
12935624 AACATGGAACATTTACCTAACCCATT
1 ATCATGGAACATTTACCTAACCCATT
12935650 ATCA
1 ATCA
12935654 ATTTGTACCA
Statistics
Matches: 73, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 73 1.00
ACGTcount: A:0.38, C:0.24, G:0.06, T:0.31
Consensus pattern (26 bp):
ATCATGGAACATTTACCTAACCCATT
Found at i:12942320 original size:20 final size:19
Alignment explanation
Indices: 12942286--12942342 Score: 53
Period size: 20 Copynumber: 2.9 Consensus size: 19
12942276 TGAAATATTA
*
12942286 GAATC-CATTAGAAATTTT
1 GAATCACATTAAAAATTTT
* *
12942304 CGTATTACATTAAAAATATTT
1 -GAATCACATTAAAAAT-TTT
*
12942325 GAATCACGTTAAAAATTT
1 GAATCACATTAAAAATTT
12942343 GGCTTTTTCC
Statistics
Matches: 30, Mismatches: 6, Indels: 4
0.75 0.15 0.10
Matches are distributed among these distances:
19 5 0.17
20 22 0.73
21 3 0.10
ACGTcount: A:0.42, C:0.11, G:0.09, T:0.39
Consensus pattern (19 bp):
GAATCACATTAAAAATTTT
Found at i:12950765 original size:46 final size:46
Alignment explanation
Indices: 12950715--12950890 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
12950705 TGGTTGAGCA
*
12950715 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
12950761 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
12950808 TCTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
12950854 CCCGAGCTCTTTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12950891 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:12950871 original size:93 final size:93
Alignment explanation
Indices: 12950712--12950883 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
12950702 GGATGGTTGA
* * *
12950712 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
12950777 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* * * *
12950805 GCATCTGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCTTTGAGT
1 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
12950870 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
12950884 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (93 bp):
GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGTTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:12953838 original size:15 final size:15
Alignment explanation
Indices: 12953818--12953886 Score: 84
Period size: 15 Copynumber: 4.6 Consensus size: 15
12953808 ATATCTTGGG
12953818 TTTCTTTATCCTGGA
1 TTTCTTTATCCTGGA
* *
12953833 TCTCTTTATTCTGGA
1 TTTCTTTATCCTGGA
* *
12953848 TTTCTTTATTCTGGG
1 TTTCTTTATCCTGGA
* *
12953863 TTTCTCTATCTTGGA
1 TTTCTTTATCCTGGA
12953878 TTTCTTTAT
1 TTTCTTTAT
12953887 TCGGTTTTCT
Statistics
Matches: 45, Mismatches: 9, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
15 45 1.00
ACGTcount: A:0.12, C:0.17, G:0.13, T:0.58
Consensus pattern (15 bp):
TTTCTTTATCCTGGA
Found at i:12953887 original size:30 final size:30
Alignment explanation
Indices: 12953809--12953896 Score: 99
Period size: 30 Copynumber: 3.0 Consensus size: 30
12953799 CATAGTATCA
* * * *
12953809 TATCTTGGGTTTCTTTATCCTGGATCTCTT
1 TATCTTGGATTTCTTTATTCTGGATTTCTC
*
12953839 TAT-TCTGGATTTCTTTATTCTGGGTTTCTC
1 TATCT-TGGATTTCTTTATTCTGGATTTCTC
*
12953869 TATCTTGGATTTCTTTATTC-GGTTTTCT
1 TATCTTGGATTTCTTTATTCTGGATTTCT
12953897 TGTTATCTTT
Statistics
Matches: 50, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
29 8 0.16
30 41 0.82
31 1 0.02
ACGTcount: A:0.10, C:0.17, G:0.16, T:0.57
Consensus pattern (30 bp):
TATCTTGGATTTCTTTATTCTGGATTTCTC
Found at i:12956334 original size:46 final size:46
Alignment explanation
Indices: 12956284--12956459 Score: 187
Period size: 46 Copynumber: 3.8 Consensus size: 46
12956274 TGGTTGAGCA
*
12956284 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
12956330 TCCGAACTCGTTGAGTTGAGTCCGAGTTC-GTGA--GATGTAACTAGGCA
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAA--A--CG
* * *
12956377 TCCGAAATCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
* * * *
12956423 CCCGAGCTCGCTGAGTTGAGTCCGAGTTCGCTTATGG
1 TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGG
12956460 GCGGGTTACA
Statistics
Matches: 106, Mismatches: 17, Indels: 14
0.77 0.12 0.10
Matches are distributed among these distances:
43 6 0.06
45 3 0.03
46 61 0.58
47 28 0.26
48 3 0.03
50 5 0.05
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.28
Consensus pattern (46 bp):
TCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAACG
Found at i:12956440 original size:93 final size:93
Alignment explanation
Indices: 12956281--12956452 Score: 281
Period size: 93 Copynumber: 1.8 Consensus size: 93
12956271 GGATGGTTGA
* * * * *
12956281 GCATCCGAACTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCAAATGTCCGAACTCGTTGAGT
1 GCATCCGAAATCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGCTGAGT
12956346 TGAGTCCGAGTTCGTGAGATGTAACTAG
66 TGAGTCCGAGTTCGTGAGATGTAACTAG
* *
12956374 GCATCCGAAATCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCGAACGCCCGAGCTCGCTGAGT
1 GCATCCGAAATCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGCTGAGT
12956439 TGAGTCCGAGTTCG
66 TGAGTCCGAGTTCG
12956453 CTTATGGGCG
Statistics
Matches: 72, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
93 72 1.00
ACGTcount: A:0.22, C:0.22, G:0.29, T:0.27
Consensus pattern (93 bp):
GCATCCGAAATCGTTGAGTTGAGTCCGAGTTCACTCATGGATGCAAACGCCCGAACTCGCTGAGT
TGAGTCCGAGTTCGTGAGATGTAACTAG
Found at i:12959721 original size:23 final size:22
Alignment explanation
Indices: 12959685--12959739 Score: 65
Period size: 23 Copynumber: 2.5 Consensus size: 22
12959675 TTAAATTTAA
12959685 AAATTTTAAAAATAAAACAACT
1 AAATTTTAAAAATAAAACAACT
* **
12959707 AAATTCTTATAAATAAAATTACT
1 AAATT-TTAAAAATAAAACAACT
*
12959730 AAATATTAAA
1 AAATTTTAAA
12959740 TTTCTTTATG
Statistics
Matches: 27, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
22 9 0.33
23 18 0.67
ACGTcount: A:0.60, C:0.07, G:0.00, T:0.33
Consensus pattern (22 bp):
AAATTTTAAAAATAAAACAACT
Found at i:12959923 original size:14 final size:14
Alignment explanation
Indices: 12959904--12959932 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
12959894 GTAGTAAAGC
12959904 ACACTAAAATTAGT
1 ACACTAAAATTAGT
12959918 ACACTAAAATTAGT
1 ACACTAAAATTAGT
12959932 A
1 A
12959933 TTAAAATTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.52, C:0.14, G:0.07, T:0.28
Consensus pattern (14 bp):
ACACTAAAATTAGT
Found at i:12962621 original size:26 final size:26
Alignment explanation
Indices: 12962592--12962699 Score: 153
Period size: 26 Copynumber: 4.2 Consensus size: 26
12962582 TGGTACAAAT
12962592 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* * * *
12962618 TGATAACGGATTAGGTAAATATTCTA
1 TGATAATGGGTTAGGTAAATGTTCCA
*
12962644 TGATAATGGGTTGGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
* *
12962670 TGAGAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
12962696 TGAT
1 TGAT
12962700 GGGCATTTCA
Statistics
Matches: 69, Mismatches: 13, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
26 69 1.00
ACGTcount: A:0.31, C:0.07, G:0.26, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:12964218 original size:26 final size:26
Alignment explanation
Indices: 12964189--12964238 Score: 66
Period size: 26 Copynumber: 1.9 Consensus size: 26
12964179 ACAGTTTTAT
12964189 CCCTAGGAGATAAATT-ACCGAAATAC
1 CCCTAGG-GATAAATTGACCGAAATAC
* *
12964215 CCCTAGGGTTAAATTGACCTAAAT
1 CCCTAGGGATAAATTGACCGAAAT
12964239 GCATGTTTGA
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
25 7 0.33
26 14 0.67
ACGTcount: A:0.38, C:0.22, G:0.16, T:0.24
Consensus pattern (26 bp):
CCCTAGGGATAAATTGACCGAAATAC
Found at i:12967008 original size:39 final size:40
Alignment explanation
Indices: 12966938--12967061 Score: 106
Period size: 38 Copynumber: 3.3 Consensus size: 40
12966928 ATAATAATGT
* * *
12966938 ATGTTA-TATATTAT-TTTT-ATAATATTATATATTATG-
1 ATGTTATTAAATTATATTTTAATAATAATATATATTAAGA
*
12966974 ATTTCTATT-AATTCATATTTTAATAATAAT-TATATTAAGA
1 ATGT-TATTAAATT-ATATTTTAATAATAATATATATTAAGA
*
12967014 ATGTTATTAAATTATA-TTTAATAATAATCT-TATTAA-A
1 ATGTTATTAAATTATATTTTAATAATAATATATATTAAGA
*
12967051 AT-TTAATAAAT
1 ATGTTATTAAAT
12967062 AATAACAATA
Statistics
Matches: 74, Mismatches: 6, Indels: 16
0.77 0.06 0.17
Matches are distributed among these distances:
36 11 0.15
37 8 0.11
38 21 0.28
39 20 0.27
40 14 0.19
ACGTcount: A:0.43, C:0.02, G:0.03, T:0.52
Consensus pattern (40 bp):
ATGTTATTAAATTATATTTTAATAATAATATATATTAAGA
Found at i:12967217 original size:44 final size:44
Alignment explanation
Indices: 12967146--12967251 Score: 160
Period size: 44 Copynumber: 2.4 Consensus size: 44
12967136 TACAACATCT
*
12967146 ATTCCATTCAACCAAATACAATGATACTAATATAGATCTATTCC
1 ATTCCATTCAACCAAACACAATGATACTAATATAGATCTATTCC
* * *
12967190 ATTGCATTCAACCAAACACAA-GAATACTATTATAGCTCTATTCC
1 ATTCCATTCAACCAAACACAATG-ATACTAATATAGATCTATTCC
12967234 ATTCCATTCAACCAAACA
1 ATTCCATTCAACCAAACA
12967252 ACTGAATTAC
Statistics
Matches: 56, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
43 1 0.02
44 55 0.98
ACGTcount: A:0.41, C:0.25, G:0.05, T:0.29
Consensus pattern (44 bp):
ATTCCATTCAACCAAACACAATGATACTAATATAGATCTATTCC
Found at i:12967285 original size:16 final size:16
Alignment explanation
Indices: 12967264--12967315 Score: 70
Period size: 16 Copynumber: 3.2 Consensus size: 16
12967254 TGAATTACTG
12967264 ATTACAGCTTTATTCC
1 ATTACAGCTTTATTCC
*
12967280 ATTACAG-TTCTATTAC
1 ATTACAGCTT-TATTCC
*
12967296 ATTACAGCTCTATTCC
1 ATTACAGCTTTATTCC
12967312 ATTA
1 ATTA
12967316 TAACCCTGTT
Statistics
Matches: 31, Mismatches: 3, Indels: 4
0.82 0.08 0.11
Matches are distributed among these distances:
15 2 0.06
16 28 0.90
17 1 0.03
ACGTcount: A:0.29, C:0.23, G:0.06, T:0.42
Consensus pattern (16 bp):
ATTACAGCTTTATTCC
Found at i:12967955 original size:27 final size:27
Alignment explanation
Indices: 12967873--12967959 Score: 74
Period size: 27 Copynumber: 3.2 Consensus size: 27
12967863 TGGTGTAATT
*
12967873 AAAAAAACTTGAGACACCATGAAATTAA
1 AAAAAAACTTGAAACACCATGAAA-TAA
* *
12967901 AAATACATAA-TT-ATAA-A-CATTAACTAA
1 AAA-A-A-AACTTGA-AACACCATGAAATAA
12967928 AAAAAAACTTGAAACACCATGAAATAA
1 AAAAAAACTTGAAACACCATGAAATAA
12967955 AAAAA
1 AAAAA
12967960 TACATATTAA
Statistics
Matches: 46, Mismatches: 5, Indels: 17
0.68 0.07 0.25
Matches are distributed among these distances:
24 2 0.04
25 5 0.11
26 3 0.07
27 19 0.41
28 8 0.17
29 3 0.07
30 4 0.09
31 2 0.04
ACGTcount: A:0.62, C:0.13, G:0.06, T:0.20
Consensus pattern (27 bp):
AAAAAAACTTGAAACACCATGAAATAA
Found at i:12968986 original size:60 final size:60
Alignment explanation
Indices: 12968888--12969010 Score: 237
Period size: 60 Copynumber: 2.0 Consensus size: 60
12968878 TAAATTTGCC
*
12968888 TCTCCATGAGAACCCTAAATCAATATCATAACTTATGATTTAGGTTACGATGTTATCATG
1 TCTCCATGAGAACCCTAAATCAATATCATAACTCATGATTTAGGTTACGATGTTATCATG
12968948 TCTCCATGAGAACCCTAAATCAATATCATAACTCATGATTTAGGTTACGATGTTATCATG
1 TCTCCATGAGAACCCTAAATCAATATCATAACTCATGATTTAGGTTACGATGTTATCATG
12969008 TCT
1 TCT
12969011 GACCAAATAT
Statistics
Matches: 62, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.33, C:0.20, G:0.13, T:0.35
Consensus pattern (60 bp):
TCTCCATGAGAACCCTAAATCAATATCATAACTCATGATTTAGGTTACGATGTTATCATG
Found at i:12971690 original size:16 final size:14
Alignment explanation
Indices: 12971649--12971683 Score: 54
Period size: 14 Copynumber: 2.5 Consensus size: 14
12971639 TTCTTGATTT
12971649 TAATTTTCA-TAAAA
1 TAATTTT-ATTAAAA
12971663 TAATTTTATTAAAA
1 TAATTTTATTAAAA
12971677 TAATTTT
1 TAATTTT
12971684 TTGTTAAGAA
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
13 1 0.05
14 19 0.95
ACGTcount: A:0.46, C:0.03, G:0.00, T:0.51
Consensus pattern (14 bp):
TAATTTTATTAAAA
Found at i:12975042 original size:29 final size:29
Alignment explanation
Indices: 12975000--12975057 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
12974990 GAATCTTCTA
12975000 ACTGTTAGAAACTTTTATCAGATAGTCTT
1 ACTGTTAGAAACTTTTATCAGATAGTCTT
12975029 ACTGTTAGAAACTTTTATCAGATAGTCTT
1 ACTGTTAGAAACTTTTATCAGATAGTCTT
12975058 TCTTTTTTTC
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.31, C:0.14, G:0.14, T:0.41
Consensus pattern (29 bp):
ACTGTTAGAAACTTTTATCAGATAGTCTT
Found at i:12977653 original size:11 final size:11
Alignment explanation
Indices: 12977637--12977661 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
12977627 GATGAATATT
12977637 TTTATTTAAAA
1 TTTATTTAAAA
12977648 TTTATTTAAAA
1 TTTATTTAAAA
12977659 TTT
1 TTT
12977662 TGGTAATTGT
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:0.40, C:0.00, G:0.00, T:0.60
Consensus pattern (11 bp):
TTTATTTAAAA
Found at i:12978934 original size:30 final size:33
Alignment explanation
Indices: 12978898--12978964 Score: 86
Period size: 36 Copynumber: 2.0 Consensus size: 33
12978888 TTTACAAACA
12978898 AACAGATC-T-TGGCC-AGAATGTGAATAATGT
1 AACAGATCATATGGCCAAGAATGTGAATAATGT
12978928 AACAGATCATATGGCCGGAAAGAATGTGAATAATGT
1 AACAGATCATATGGCC---AAGAATGTGAATAATGT
12978964 A
1 A
12978965 CTTTGCTACA
Statistics
Matches: 31, Mismatches: 0, Indels: 6
0.84 0.00 0.16
Matches are distributed among these distances:
30 8 0.26
31 1 0.03
32 5 0.16
36 17 0.55
ACGTcount: A:0.40, C:0.12, G:0.24, T:0.24
Consensus pattern (33 bp):
AACAGATCATATGGCCAAGAATGTGAATAATGT
Found at i:12981690 original size:30 final size:30
Alignment explanation
Indices: 12981641--12981702 Score: 90
Period size: 30 Copynumber: 2.1 Consensus size: 30
12981631 ATTAATAATT
*
12981641 TATAAGAATTAAATTAAATTAAAATATTATA
1 TATAAGAATTAAATAAAATTAAAAT-TTATA
*
12981672 TATAA-AATTACATAAAATTAAAATTTATA
1 TATAAGAATTAAATAAAATTAAAATTTATA
12981701 TA
1 TA
12981703 AAATTATATA
Statistics
Matches: 29, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
29 7 0.24
30 17 0.59
31 5 0.17
ACGTcount: A:0.58, C:0.02, G:0.02, T:0.39
Consensus pattern (30 bp):
TATAAGAATTAAATAAAATTAAAATTTATA
Found at i:12981705 original size:17 final size:16
Alignment explanation
Indices: 12981674--12981708 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 16
12981664 ATATTATATA
12981674 TAAAATTACATAAAAT
1 TAAAATTACATAAAAT
*
12981690 TAAAATTTATATAAAAT
1 TAAAA-TTACATAAAAT
12981707 TA
1 TA
12981709 TATATTAAAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 5 0.29
17 12 0.71
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.37
Consensus pattern (16 bp):
TAAAATTACATAAAAT
Found at i:12981722 original size:29 final size:28
Alignment explanation
Indices: 12981626--12981727 Score: 95
Period size: 27 Copynumber: 3.6 Consensus size: 28
12981616 TTTACCAATA
* *
12981626 ATTATATTAATAATTTATA-AGAATTAA-
1 ATTAAATTAA-AATTTATATAAAATTAAT
12981653 ATTAAATTAAAATATTATATATAAAATTACAT
1 ATTAAATT-AAA-ATT-TATATAAAATTA-AT
12981685 A--AAATTAAAATTTATATAAAATTATAT
1 ATTAAATTAAAATTTATATAAAATTA-AT
*
12981712 ATTAAACTAAAATTTA
1 ATTAAATTAAAATTTA
12981728 CTTATAATTT
Statistics
Matches: 63, Mismatches: 4, Indels: 14
0.78 0.05 0.17
Matches are distributed among these distances:
27 23 0.37
28 8 0.13
29 19 0.30
30 11 0.17
31 1 0.02
32 1 0.02
ACGTcount: A:0.56, C:0.02, G:0.01, T:0.41
Consensus pattern (28 bp):
ATTAAATTAAAATTTATATAAAATTAAT
Found at i:12986290 original size:15 final size:15
Alignment explanation
Indices: 12986266--12986295 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
12986256 ACATCTAATA
*
12986266 TAAACTAACCCAAAC
1 TAAACCAACCCAAAC
12986281 TAAACCAACCCAAAC
1 TAAACCAACCCAAAC
12986296 CCACCTAAAA
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.53, C:0.37, G:0.00, T:0.10
Consensus pattern (15 bp):
TAAACCAACCCAAAC
Found at i:12987892 original size:22 final size:23
Alignment explanation
Indices: 12987854--12987909 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 23
12987844 ATATACCTTT
**
12987854 TTTATTATTT-TACTTTATTATA
1 TTTATTATTTATACTTTAACATA
*
12987876 TTTATTATTTAT-TTTTAACATA
1 TTTATTATTTATACTTTAACATA
12987898 -TTATTATTTATA
1 TTTATTATTTATA
12987910 TCATCATTTT
Statistics
Matches: 29, Mismatches: 3, Indels: 4
0.81 0.08 0.11
Matches are distributed among these distances:
21 11 0.38
22 17 0.59
23 1 0.03
ACGTcount: A:0.30, C:0.04, G:0.00, T:0.66
Consensus pattern (23 bp):
TTTATTATTTATACTTTAACATA
Found at i:12988597 original size:24 final size:24
Alignment explanation
Indices: 12988569--12988627 Score: 66
Period size: 26 Copynumber: 2.4 Consensus size: 24
12988559 TTAATGTTAT
* *
12988569 TATGTATGTAC-TTTTCCTATATA
1 TATGTATATACATTTTCATATATA
*
12988592 TCATGTACATACATTTTTCATATATA
1 T-ATGTATATACA-TTTTCATATATA
12988618 TATGTATATA
1 TATGTATATA
12988628 TTATGTATAC
Statistics
Matches: 29, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
23 1 0.03
24 8 0.28
25 8 0.28
26 12 0.41
ACGTcount: A:0.32, C:0.12, G:0.07, T:0.49
Consensus pattern (24 bp):
TATGTATATACATTTTCATATATA
Found at i:13003197 original size:2 final size:2
Alignment explanation
Indices: 13003190--13003279 Score: 146
Period size: 2 Copynumber: 45.5 Consensus size: 2
13003180 AGTACAATAA
*
13003190 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG TG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
* *
13003232 TG AG AG AG TG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
1 AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG AG
13003274 A- AG AG A
1 AG AG AG A
13003280 ACATTGTGAA
Statistics
Matches: 81, Mismatches: 6, Indels: 2
0.91 0.07 0.02
Matches are distributed among these distances:
1 1 0.01
2 80 0.99
ACGTcount: A:0.48, C:0.00, G:0.49, T:0.03
Consensus pattern (2 bp):
AG
Found at i:13004824 original size:7 final size:7
Alignment explanation
Indices: 13004812--13004846 Score: 61
Period size: 7 Copynumber: 5.0 Consensus size: 7
13004802 ATAATATTTT
13004812 GGGTTTA
1 GGGTTTA
13004819 GGGTTTA
1 GGGTTTA
13004826 GGGTTTA
1 GGGTTTA
*
13004833 GAGTTTA
1 GGGTTTA
13004840 GGGTTTA
1 GGGTTTA
13004847 TAGTTTGTTT
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
7 26 1.00
ACGTcount: A:0.17, C:0.00, G:0.40, T:0.43
Consensus pattern (7 bp):
GGGTTTA
Found at i:13004831 original size:14 final size:14
Alignment explanation
Indices: 13004812--13004852 Score: 64
Period size: 14 Copynumber: 2.9 Consensus size: 14
13004802 ATAATATTTT
*
13004812 GGGTTTAGGGTTTA
1 GGGTTTAGAGTTTA
13004826 GGGTTTAGAGTTTA
1 GGGTTTAGAGTTTA
*
13004840 GGGTTTATAGTTT
1 GGGTTTAGAGTTT
13004853 GTTTTATGTG
Statistics
Matches: 25, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.17, C:0.00, G:0.37, T:0.46
Consensus pattern (14 bp):
GGGTTTAGAGTTTA
Found at i:13004927 original size:17 final size:17
Alignment explanation
Indices: 13004905--13004948 Score: 79
Period size: 17 Copynumber: 2.6 Consensus size: 17
13004895 TAATTTTAAA
13004905 TTTGCTTTATAAAATAG
1 TTTGCTTTATAAAATAG
13004922 TTTGCTTTATAAAATAG
1 TTTGCTTTATAAAATAG
*
13004939 TTTGTTTTAT
1 TTTGCTTTAT
13004949 GTGCCTGGGT
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 26 1.00
ACGTcount: A:0.30, C:0.05, G:0.11, T:0.55
Consensus pattern (17 bp):
TTTGCTTTATAAAATAG
Found at i:13007978 original size:8 final size:7
Alignment explanation
Indices: 13007957--13007992 Score: 56
Period size: 7 Copynumber: 5.1 Consensus size: 7
13007947 ACCCTTTCTC
13007957 AAAGAAA
1 AAAGAAA
13007964 AACA-AAA
1 AA-AGAAA
13007971 AAAGAAA
1 AAAGAAA
13007978 AAAGAAA
1 AAAGAAA
13007985 AAAGAAA
1 AAAGAAA
13007992 A
1 A
13007993 GAAATAATCT
Statistics
Matches: 27, Mismatches: 0, Indels: 4
0.87 0.00 0.13
Matches are distributed among these distances:
6 1 0.04
7 25 0.93
8 1 0.04
ACGTcount: A:0.86, C:0.03, G:0.11, T:0.00
Consensus pattern (7 bp):
AAAGAAA
Found at i:13008405 original size:20 final size:20
Alignment explanation
Indices: 13008367--13008405 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
13008357 TGGAACAAGA
*
13008367 ATATCGATACCTTAGGAAAT
1 ATATCGATACCTTAAGAAAT
*
13008387 ATATCGATACTTTAAGAAA
1 ATATCGATACCTTAAGAAA
13008406 AGTATTGATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 17 1.00
ACGTcount: A:0.44, C:0.13, G:0.13, T:0.31
Consensus pattern (20 bp):
ATATCGATACCTTAAGAAAT
Found at i:13011126 original size:27 final size:27
Alignment explanation
Indices: 13010932--13011125 Score: 262
Period size: 27 Copynumber: 7.1 Consensus size: 27
13010922 CCCTAATTGA
* * *
13010932 TAAAATGACTATTTTTTCCTTTATGTGG
1 TAAAATGACT-GTTTTGCCCTTATGTGG
* *
13010960 TAAAATGACTATTTTGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
13010987 TAAAATGACTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
13011014 TAAAATGATTGTTTTGCCCTTATGTGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
*
13011041 TAAAATGACTGTTTTGCCCTTATGTTG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
13011068 TAAAATGATTGTTTCGCCCTTATATGG
1 TAAAATGACTGTTTTGCCCTTATGTGG
* * *
13011095 TAAATTGACTGTTTTGCCCCTATGTGA
1 TAAAATGACTGTTTTGCCCTTATGTGG
13011122 TAAA
1 TAAA
13011126 TGTTTATATT
Statistics
Matches: 147, Mismatches: 19, Indels: 1
0.88 0.11 0.01
Matches are distributed among these distances:
27 137 0.93
28 10 0.07
ACGTcount: A:0.25, C:0.14, G:0.18, T:0.43
Consensus pattern (27 bp):
TAAAATGACTGTTTTGCCCTTATGTGG
Found at i:13011481 original size:18 final size:17
Alignment explanation
Indices: 13011454--13011487 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
13011444 ACATATATGT
13011454 ACTGTTACTGTTACTGC
1 ACTGTTACTGTTACTGC
13011471 ACTGTTTACTGTTACTG
1 ACTG-TTACTGTTACTG
13011488 TAATGGGCCA
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 4 0.25
18 12 0.75
ACGTcount: A:0.18, C:0.21, G:0.18, T:0.44
Consensus pattern (17 bp):
ACTGTTACTGTTACTGC
Found at i:13012493 original size:18 final size:18
Alignment explanation
Indices: 13012453--13012494 Score: 50
Period size: 18 Copynumber: 2.4 Consensus size: 18
13012443 AAAAATTTTC
*
13012453 GCTTTT-TCACTCACAAT
1 GCTTTTATCACTAACAAT
* *
13012470 GTTTTTATCACTAACCAT
1 GCTTTTATCACTAACAAT
13012488 GCTTTTA
1 GCTTTTA
13012495 ACCTTCACAA
Statistics
Matches: 20, Mismatches: 4, Indels: 1
0.80 0.16 0.04
Matches are distributed among these distances:
17 5 0.25
18 15 0.75
ACGTcount: A:0.24, C:0.24, G:0.07, T:0.45
Consensus pattern (18 bp):
GCTTTTATCACTAACAAT
Found at i:13012511 original size:18 final size:18
Alignment explanation
Indices: 13012460--13012511 Score: 52
Period size: 18 Copynumber: 2.9 Consensus size: 18
13012450 TTCGCTTTTT
*
13012460 CACTCACAATGTTTTTAT
1 CACTCACAATGTTTTTAA
* * *
13012478 CACTAACCATGCTTTTAA
1 CACTCACAATGTTTTTAA
13012496 C-CTTCACAATGTTTTT
1 CAC-TCACAATGTTTTT
13012512 TTTGCTCGCA
Statistics
Matches: 26, Mismatches: 7, Indels: 2
0.74 0.20 0.06
Matches are distributed among these distances:
17 1 0.04
18 25 0.96
ACGTcount: A:0.27, C:0.25, G:0.06, T:0.42
Consensus pattern (18 bp):
CACTCACAATGTTTTTAA
Found at i:13013356 original size:27 final size:27
Alignment explanation
Indices: 13013326--13013389 Score: 85
Period size: 26 Copynumber: 2.4 Consensus size: 27
13013316 TTTCTCATCC
*
13013326 TTATTTTACCCCCCGTAAAATTTTTGA
1 TTATTTTACCCCCCATAAAATTTTTGA
* * *
13013353 TTATTTTA-CGCCCATAAATTTTTTTA
1 TTATTTTACCCCCCATAAAATTTTTGA
13013379 TTATTTTACCC
1 TTATTTTACCC
13013390 ATGGTAAAAT
Statistics
Matches: 31, Mismatches: 5, Indels: 2
0.82 0.13 0.05
Matches are distributed among these distances:
26 22 0.71
27 9 0.29
ACGTcount: A:0.25, C:0.20, G:0.05, T:0.50
Consensus pattern (27 bp):
TTATTTTACCCCCCATAAAATTTTTGA
Found at i:13013402 original size:26 final size:25
Alignment explanation
Indices: 13013326--13013402 Score: 66
Period size: 27 Copynumber: 2.9 Consensus size: 25
13013316 TTTCTCATCC
*
13013326 TTATTTTACCCCCCGTAAAATTTTTGA
1 TTATTTTA--CCCAGTAAAATTTTTGA
* *
13013353 TTATTTTACGCCCA-TAAATTTTTTTA
1 TTATTTTA--CCCAGTAAAATTTTTGA
13013379 TTATTTTACCCATGGTAAAATTTT
1 TTATTTTACCCA--GTAAAATTTT
13013403 GAGAAAAGAT
Statistics
Matches: 42, Mismatches: 5, Indels: 6
0.79 0.09 0.11
Matches are distributed among these distances:
24 4 0.10
26 18 0.43
27 20 0.48
ACGTcount: A:0.27, C:0.17, G:0.06, T:0.49
Consensus pattern (25 bp):
TTATTTTACCCAGTAAAATTTTTGA
Found at i:13021215 original size:27 final size:27
Alignment explanation
Indices: 13021175--13021262 Score: 106
Period size: 27 Copynumber: 3.2 Consensus size: 27
13021165 AGGAAGCGTC
*
13021175 CTGGTGGCTATGCCACAATTATCTGAT
1 CTGGTGGCTCTGCCACAATTATCTGAT
* * *
13021202 CTGGTGGCTCTGCCATATATT-TTTGTT
1 CTGGTGGCTCTGCCACA-ATTATCTGAT
*
13021229 CTGGTGGCTCTGCCACGATTATCTGTAT
1 CTGGTGGCTCTGCCACAATTATCTG-AT
13021257 CTGGTG
1 CTGGTG
13021263 ACTTTGTCCC
Statistics
Matches: 50, Mismatches: 8, Indels: 5
0.79 0.13 0.08
Matches are distributed among these distances:
26 3 0.06
27 37 0.74
28 10 0.20
ACGTcount: A:0.15, C:0.22, G:0.25, T:0.39
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATTATCTGAT
Found at i:13021281 original size:54 final size:53
Alignment explanation
Indices: 13021175--13021286 Score: 138
Period size: 54 Copynumber: 2.1 Consensus size: 53
13021165 AGGAAGCGTC
*
13021175 CTGGTGGCTATGCCACAATTATCTGATCTGGTGGCTCTGCCATATATTTTTGTT
1 CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCATATA-TTTTGTT
* * *
13021229 CTGGTGGCTCTGCCACGATTATCTGTATCTGGTGACTTTGTCCCAT-TA-TTTGTT
1 CTGGTGGCTATGCCACAATTATCTG-ATCTGGTGACTCTG--CCATATATTTTGTT
13021283 CTGG
1 CTGG
13021287 CAGCCATGCT
Statistics
Matches: 51, Mismatches: 4, Indels: 6
0.84 0.07 0.10
Matches are distributed among these distances:
54 33 0.65
55 12 0.24
56 2 0.04
57 4 0.08
ACGTcount: A:0.14, C:0.21, G:0.23, T:0.41
Consensus pattern (53 bp):
CTGGTGGCTATGCCACAATTATCTGATCTGGTGACTCTGCCATATATTTTGTT
Found at i:13026886 original size:22 final size:22
Alignment explanation
Indices: 13026854--13026896 Score: 68
Period size: 22 Copynumber: 2.0 Consensus size: 22
13026844 GAATGATCTA
*
13026854 TTGATTTTTAAAATATATTCAG
1 TTGATTATTAAAATATATTCAG
*
13026876 TTGATTATTAATATATATTCA
1 TTGATTATTAAAATATATTCA
13026897 AGAATTGTAA
Statistics
Matches: 19, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
22 19 1.00
ACGTcount: A:0.37, C:0.05, G:0.07, T:0.51
Consensus pattern (22 bp):
TTGATTATTAAAATATATTCAG
Found at i:13028550 original size:5 final size:5
Alignment explanation
Indices: 13028537--13028670 Score: 67
Period size: 5 Copynumber: 27.0 Consensus size: 5
13028527 AAAGCAAAAT
* * * ** * *
13028537 AGAAA AGAAC AGAAC AAAAC AAGTA- A-AAC AGAAC AGAAC TTAAT AGAGC
1 AGAAC AGAAC AGAAC AGAAC -AGAAC AGAAC AGAAC AGAAC AGAAC AGAAC
* * * * *
13028586 AGAAC AGAAC ATAAT GGAAC AGAAC AGAAC AGAAC TA-AGC AGAAC AGAAT
1 AGAAC AGAAC AGAAC AGAAC AGAAC AGAAC AGAAC -AGAAC AGAAC AGAAC
* * ** * *
13028636 GGAGC AGAGT AGAAC GGAAC AGAGC AGAAC AGAAC
1 AGAAC AGAAC AGAAC AGAAC AGAAC AGAAC AGAAC
13028671 GTGTATGTTT
Statistics
Matches: 91, Mismatches: 33, Indels: 10
0.68 0.25 0.07
Matches are distributed among these distances:
3 1 0.01
4 3 0.03
5 84 0.92
6 3 0.03
ACGTcount: A:0.55, C:0.16, G:0.22, T:0.07
Consensus pattern (5 bp):
AGAAC
Found at i:13028590 original size:20 final size:20
Alignment explanation
Indices: 13028565--13028634 Score: 88
Period size: 20 Copynumber: 3.5 Consensus size: 20
13028555 ACAAGTAAAA
*
13028565 CAGAACAGAACTTAATAGAG
1 CAGAACAGAACATAATAGAG
* *
13028585 CAGAACAGAACATAATGGAA
1 CAGAACAGAACATAATAGAG
*
13028605 CAGAACAGAACAGAACTA-AG
1 CAGAACAGAACATAA-TAGAG
13028625 CAGAACAGAA
1 CAGAACAGAA
13028635 TGGAGCAGAG
Statistics
Matches: 43, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
20 42 0.98
21 1 0.02
ACGTcount: A:0.54, C:0.17, G:0.20, T:0.09
Consensus pattern (20 bp):
CAGAACAGAACATAATAGAG
Found at i:13028629 original size:35 final size:35
Alignment explanation
Indices: 13028567--13028669 Score: 100
Period size: 35 Copynumber: 2.9 Consensus size: 35
13028557 AAGTAAAACA
** * * * *
13028567 GAACAGAACTTAATAGAGCAGAACAGAACATAATG
1 GAACAGAACAGAACAGAACAGAGCAGAACAGAATG
13028602 GAACAGAACAGAACAGAACTA-AGCAGAACAGAATG
1 GAACAGAACAGAACAGAAC-AGAGCAGAACAGAATG
* ** *
13028637 GAGCAGAGTAGAACGGAACAGAGCAGAACAGAA
1 GAACAGAACAGAACAGAACAGAGCAGAACAGAA
13028670 CGTGTATGTT
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
34 1 0.02
35 54 0.96
36 1 0.02
ACGTcount: A:0.51, C:0.16, G:0.25, T:0.08
Consensus pattern (35 bp):
GAACAGAACAGAACAGAACAGAGCAGAACAGAATG
Found at i:13037120 original size:17 final size:18
Alignment explanation
Indices: 13037098--13037131 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13037088 TTGGGCCGTG
*
13037098 TGTGGG-CCACATGGGCT
1 TGTGGGTCCACACGGGCT
13037115 TGTGGGTCCACACGGGC
1 TGTGGGTCCACACGGGC
13037132 AAGCCCCATG
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 6 0.40
18 9 0.60
ACGTcount: A:0.12, C:0.26, G:0.41, T:0.21
Consensus pattern (18 bp):
TGTGGGTCCACACGGGCT
Found at i:13037522 original size:40 final size:40
Alignment explanation
Indices: 13037451--13037527 Score: 118
Period size: 40 Copynumber: 1.9 Consensus size: 40
13037441 GTCCAGCCAG
* *
13037451 ATTTGGTGTGTAGGGTTGGATGGATTGATTTTATCCCCAT
1 ATTTGGTGTGTAGGGATGGATGGATTAATTTTATCCCCAT
* *
13037491 ATTTGGTGTGTAGGGATGGGTGGGTTAATTTTATCCC
1 ATTTGGTGTGTAGGGATGGATGGATTAATTTTATCCC
13037528 TACATGGTGT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 33 1.00
ACGTcount: A:0.17, C:0.09, G:0.32, T:0.42
Consensus pattern (40 bp):
ATTTGGTGTGTAGGGATGGATGGATTAATTTTATCCCCAT
Found at i:13040272 original size:17 final size:17
Alignment explanation
Indices: 13040235--13040288 Score: 63
Period size: 17 Copynumber: 3.1 Consensus size: 17
13040225 TTCTTTGACC
* *
13040235 TATTTAGTTTATAAATC
1 TATTTAGTTTATATATA
13040252 TATTTAGTTTATATATA
1 TATTTAGTTTATATATA
* *
13040269 TATTGGAGTTTAGATATA
1 TATT-TAGTTTATATATA
13040287 TA
1 TA
13040289 ATACATATTG
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
17 19 0.59
18 13 0.41
ACGTcount: A:0.35, C:0.02, G:0.11, T:0.52
Consensus pattern (17 bp):
TATTTAGTTTATATATA
Found at i:13040298 original size:25 final size:22
Alignment explanation
Indices: 13040268--13040323 Score: 71
Period size: 20 Copynumber: 2.5 Consensus size: 22
13040258 GTTTATATAT
13040268 ATATTGGAGTTTAGATATATAATAC
1 ATATTGG-GTTT--ATATATAATAC
13040293 ATATTGGGTTTATATATAAT--
1 ATATTGGGTTTATATATAATAC
13040313 ATATTGGGTTT
1 ATATTGGGTTT
13040324 GGGCTTGTAG
Statistics
Matches: 31, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
20 11 0.35
22 9 0.29
24 4 0.13
25 7 0.23
ACGTcount: A:0.34, C:0.02, G:0.18, T:0.46
Consensus pattern (22 bp):
ATATTGGGTTTATATATAATAC
Found at i:13050244 original size:21 final size:21
Alignment explanation
Indices: 13050218--13050333 Score: 117
Period size: 21 Copynumber: 5.4 Consensus size: 21
13050208 TACACGGTCT
* *
13050218 GGCCACATGGATGTGTGGGAA
1 GGCCACACGGATGTGTGGGGA
* **
13050239 GGCCACATGGGCGTGTGGGGA
1 GGCCACACGGATGTGTGGGGA
**
13050260 GGCCACACGGGCGTGTGGGGA
1 GGCCACACGGATGTGTGGGGA
13050281 GGCCACAC-GAGTGTGTGGGGA
1 GGCCACACGGA-TGTGTGGGGA
*
13050302 GGCCACACGGCCATGTGTTGGGA
1 GGCCACACGG--ATGTGTGGGGA
*
13050325 AGCCACACG
1 GGCCACACG
13050334 ACTTGGCCAC
Statistics
Matches: 83, Mismatches: 8, Indels: 6
0.86 0.08 0.06
Matches are distributed among these distances:
20 1 0.01
21 63 0.76
22 1 0.01
23 17 0.20
24 1 0.01
ACGTcount: A:0.19, C:0.22, G:0.45, T:0.14
Consensus pattern (21 bp):
GGCCACACGGATGTGTGGGGA
Found at i:13050277 original size:42 final size:42
Alignment explanation
Indices: 13050230--13050334 Score: 131
Period size: 42 Copynumber: 2.5 Consensus size: 42
13050220 CCACATGGAT
* *
13050230 GTGTGGGAAGGCCACATGGGCGTGTGGGGAGGCCACACGGGC
1 GTGTGGGAAGGCCACACGAGCGTGTGGGGAGGCCACACGGGC
* * *
13050272 GTGTGGGGAGGCCACACGAGTGTGTGGGGAGGCCACACGGCC
1 GTGTGGGAAGGCCACACGAGCGTGTGGGGAGGCCACACGGGC
13050314 ATGTGTTGGGAA-GCCACACGA
1 --GTG-TGGGAAGGCCACACGA
13050335 CTTGGCCACA
Statistics
Matches: 54, Mismatches: 6, Indels: 4
0.84 0.09 0.06
Matches are distributed among these distances:
42 37 0.69
44 12 0.22
45 5 0.09
ACGTcount: A:0.19, C:0.22, G:0.46, T:0.13
Consensus pattern (42 bp):
GTGTGGGAAGGCCACACGAGCGTGTGGGGAGGCCACACGGGC
Found at i:13052943 original size:103 final size:103
Alignment explanation
Indices: 13052764--13052967 Score: 372
Period size: 103 Copynumber: 2.0 Consensus size: 103
13052754 AAGGGTTGAC
* *
13052764 TTGATTCACTTGAATCCAATTCAATCTTCAAATGCCAATGATTGGTTTCCATAGATGGACTATAG
1 TTGATTCACTTGAATCCAATTAAACCTTCAAATGCCAATGATTGGTTTCCATAGATGGACTATAG
*
13052829 TATCTTCACTAACACGGAACATAAATAGGTTTAAAGAT
66 TATCTTCACTAACACGGAACATAAATAAGTTTAAAGAT
*
13052867 TTGATTCACTTGAATCCAATTAAACCTTCAAATGCCAGTGATTGGTTTCCATAGATGGACTATAG
1 TTGATTCACTTGAATCCAATTAAACCTTCAAATGCCAATGATTGGTTTCCATAGATGGACTATAG
13052932 TATCTTCACTAACACGGAACATAAATAAGTTTAAAG
66 TATCTTCACTAACACGGAACATAAATAAGTTTAAAG
13052968 GTTTTCTTCA
Statistics
Matches: 97, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
103 97 1.00
ACGTcount: A:0.35, C:0.18, G:0.15, T:0.32
Consensus pattern (103 bp):
TTGATTCACTTGAATCCAATTAAACCTTCAAATGCCAATGATTGGTTTCCATAGATGGACTATAG
TATCTTCACTAACACGGAACATAAATAAGTTTAAAGAT
Found at i:13053296 original size:25 final size:25
Alignment explanation
Indices: 13053268--13053316 Score: 71
Period size: 25 Copynumber: 2.0 Consensus size: 25
13053258 AATATATTAT
**
13053268 AAATTTATCATTTGGTTTTTATTTC
1 AAATTTATCATTTGAATTTTATTTC
*
13053293 AAATTTATGATTTGAATTTTATTT
1 AAATTTATCATTTGAATTTTATTT
13053317 TTTTTATTTG
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.29, C:0.04, G:0.08, T:0.59
Consensus pattern (25 bp):
AAATTTATCATTTGAATTTTATTTC
Found at i:13061946 original size:44 final size:42
Alignment explanation
Indices: 13061885--13062041 Score: 160
Period size: 43 Copynumber: 3.7 Consensus size: 42
13061875 TGTGTTATCG
* *
13061885 TGTAAGACCACCTCTGGGACGTTGGCATCGACTTATGATTTACG
1 TGTAAGACCACGTCTGGGACGTTGGCATCGA-TT-TGATTTACA
* * * *
13061929 TGTAAGACCATGTCTGGGACATCGGCATCGTATTTAATTT-CA
1 TGTAAGACCACGTCTGGGACGTTGGCATCG-ATTTGATTTACA
*
13061971 TGTAAGACC-CTGTTTGGGACAG-TGGCATCGATATTTGA-TTACA
1 TGTAAGACCAC-GTCTGGGAC-GTTGGCATCG--ATTTGATTTACA
13062014 TGTAAGACCACGTCTGGGACGTTGGCAT
1 TGTAAGACCACGTCTGGGACGTTGGCAT
13062042 TGTATGAGCT
Statistics
Matches: 94, Mismatches: 12, Indels: 15
0.78 0.10 0.12
Matches are distributed among these distances:
42 28 0.30
43 36 0.38
44 29 0.31
45 1 0.01
ACGTcount: A:0.24, C:0.20, G:0.25, T:0.31
Consensus pattern (42 bp):
TGTAAGACCACGTCTGGGACGTTGGCATCGATTTGATTTACA
Found at i:13082049 original size:24 final size:24
Alignment explanation
Indices: 13082016--13082061 Score: 65
Period size: 24 Copynumber: 1.9 Consensus size: 24
13082006 ATTGTTGTGG
*
13082016 TGATGCTCCCTAATCAAAAGGAAA
1 TGATGCTCCCTAACCAAAAGGAAA
* *
13082040 TGATGGTCCCTGACCAAAAGGA
1 TGATGCTCCCTAACCAAAAGGA
13082062 GTATTGAGAT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
24 19 1.00
ACGTcount: A:0.37, C:0.22, G:0.22, T:0.20
Consensus pattern (24 bp):
TGATGCTCCCTAACCAAAAGGAAA
Found at i:13085299 original size:21 final size:21
Alignment explanation
Indices: 13085273--13085313 Score: 64
Period size: 21 Copynumber: 2.0 Consensus size: 21
13085263 AATGCTCACT
13085273 CTTGTCTCCTATTGAAATTAC
1 CTTGTCTCCTATTGAAATTAC
* *
13085294 CTTGTCTTCTGTTGAAATTA
1 CTTGTCTCCTATTGAAATTA
13085314 TTCTTTTAGT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.22, C:0.20, G:0.12, T:0.46
Consensus pattern (21 bp):
CTTGTCTCCTATTGAAATTAC
Found at i:13091852 original size:20 final size:20
Alignment explanation
Indices: 13091827--13091893 Score: 53
Period size: 20 Copynumber: 3.0 Consensus size: 20
13091817 TATTTGGGCA
13091827 TCCGAGCTCGTTGAGTTGAG
1 TCCGAGCTCGTTGAGTTGAG
* * *
13091847 TCCGAGTTCACTTATAGATGTGAATG
1 TCCGAGCTC-GTT-GAG-T-TG-A-G
13091873 TCCGAGCTCGTTGAGTTGAG
1 TCCGAGCTCGTTGAGTTGAG
13091893 T
1 T
13091894 TTGAGTTCGT
Statistics
Matches: 35, Mismatches: 6, Indels: 12
0.66 0.11 0.23
Matches are distributed among these distances:
20 10 0.29
21 3 0.09
22 4 0.11
23 2 0.06
24 4 0.11
25 3 0.09
26 9 0.26
ACGTcount: A:0.19, C:0.18, G:0.30, T:0.33
Consensus pattern (20 bp):
TCCGAGCTCGTTGAGTTGAG
Found at i:13091880 original size:46 final size:46
Alignment explanation
Indices: 13091827--13092091 Score: 260
Period size: 46 Copynumber: 5.7 Consensus size: 46
13091817 TATTTGGGCA
13091827 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAATG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAATG
** * *
13091873 TCCGAGCTCGTTGAGTTGAGTTTGAGTT--CGT-GAGATGT-AACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAA-T--G
* * *
13091918 CATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAATG
*
13091966 TCCGAGCTCGTTGAGTTGAGTCCGAGTT--C-T-GAGATGT-AACTAGG
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAA-T--G
* * * *
13092010 CATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG
1 --TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAATG
*
13092058 CCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
1 TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTA
13092092 CGGGCGGGTT
Statistics
Matches: 178, Mismatches: 22, Indels: 38
0.75 0.09 0.16
Matches are distributed among these distances:
41 2 0.01
42 7 0.04
43 8 0.04
44 4 0.02
45 1 0.01
46 112 0.63
47 25 0.14
48 3 0.02
49 3 0.02
50 9 0.05
51 4 0.02
ACGTcount: A:0.20, C:0.19, G:0.30, T:0.31
Consensus pattern (46 bp):
TCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAATG
Found at i:13092047 original size:92 final size:93
Alignment explanation
Indices: 13091823--13092086 Score: 458
Period size: 92 Copynumber: 2.8 Consensus size: 93
13091813 AGGATATTTG
* * *
13091823 GGCATCCGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATAGATGTGAATGTCCGAGCTCGTTGAG
1 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
**
13091888 TTGAGTTTGAGTTCGTGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
13091916 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
1 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
13091981 TTGAGTCCGAGTTC-TGAGATGTAACTA
66 TTGAGTCCGAGTTCGTGAGATGTAACTA
* *
13092008 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACGCCCGAGCTCGTTGAG
1 GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
13092073 TTGAGTCCGAGTTC
66 TTGAGTCCGAGTTC
13092087 ACTTACGGGC
Statistics
Matches: 164, Mismatches: 7, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
92 90 0.55
93 74 0.45
ACGTcount: A:0.20, C:0.19, G:0.31, T:0.30
Consensus pattern (93 bp):
GGCATCTGAGCTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCCGAGCTCGTTGAG
TTGAGTCCGAGTTCGTGAGATGTAACTA
Found at i:13096487 original size:18 final size:18
Alignment explanation
Indices: 13096464--13096500 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
13096454 CCAATTATAT
13096464 TTTTTTTATAATTTCTAA
1 TTTTTTTATAATTTCTAA
*
13096482 TTTTTTTATAATTTTTAA
1 TTTTTTTATAATTTCTAA
13096500 T
1 T
13096501 ACTTATTTAT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.27, C:0.03, G:0.00, T:0.70
Consensus pattern (18 bp):
TTTTTTTATAATTTCTAA
Found at i:13097057 original size:15 final size:15
Alignment explanation
Indices: 13097037--13097066 Score: 51
Period size: 15 Copynumber: 2.0 Consensus size: 15
13097027 TTTAATCCTT
*
13097037 TATAAATTATAAAAA
1 TATAAACTATAAAAA
13097052 TATAAACTATAAAAA
1 TATAAACTATAAAAA
13097067 ATTAAAATTT
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.67, C:0.03, G:0.00, T:0.30
Consensus pattern (15 bp):
TATAAACTATAAAAA
Found at i:13101058 original size:22 final size:21
Alignment explanation
Indices: 13101023--13101098 Score: 68
Period size: 22 Copynumber: 3.7 Consensus size: 21
13101013 AAAAGGTATC
* *
13101023 TACAAATTAAATCTCTAAGAT
1 TACAAATCATATCTCTAAGAT
13101044 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
13101067 TGCATATCATA--TCTAAGAT
1 TACAAATCATATCTCTAAGAT
*
13101086 TGC-AATCATATCT
1 TACAAATCATATCT
13101099 AAGATTGTAT
Statistics
Matches: 46, Mismatches: 5, Indels: 9
0.77 0.08 0.15
Matches are distributed among these distances:
18 6 0.13
19 11 0.24
20 1 0.02
21 3 0.07
22 15 0.33
23 10 0.22
ACGTcount: A:0.41, C:0.17, G:0.07, T:0.36
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:13101115 original size:35 final size:37
Alignment explanation
Indices: 13101052--13101149 Score: 150
Period size: 35 Copynumber: 2.7 Consensus size: 37
13101042 ATTACAAAAT
13101052 CATATC-T-TCTAAGATTGCATATCATATCTAAGATTG
1 CATATCATATCTAAGATTG-ATATCATATCTAAGATTG
13101088 CA-ATCATATCTAAGATTG-TATCATATCTAAGATTG
1 CATATCATATCTAAGATTGATATCATATCTAAGATTG
13101123 CATATCATATCTAAGATTGCATATCAT
1 CATATCATATCTAAGATTG-ATATCAT
13101150 TGAAGATTAT
Statistics
Matches: 57, Mismatches: 0, Indels: 8
0.88 0.00 0.12
Matches are distributed among these distances:
35 22 0.39
36 19 0.33
37 10 0.18
38 6 0.11
ACGTcount: A:0.36, C:0.16, G:0.10, T:0.38
Consensus pattern (37 bp):
CATATCATATCTAAGATTGATATCATATCTAAGATTG
Found at i:13101157 original size:17 final size:19
Alignment explanation
Indices: 13101059--13101149 Score: 161
Period size: 19 Copynumber: 4.9 Consensus size: 19
13101049 AATCATATCT
13101059 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
13101078 TCTAAGATTGCA-ATCATA
1 TCTAAGATTGCATATCATA
13101096 TCTAAGATTG--TATCATA
1 TCTAAGATTGCATATCATA
13101113 TCTAAGATTGCATATCATA
1 TCTAAGATTGCATATCATA
13101132 TCTAAGATTGCATATCAT
1 TCTAAGATTGCATATCAT
13101150 TGAAGATTAT
Statistics
Matches: 69, Mismatches: 0, Indels: 6
0.92 0.00 0.08
Matches are distributed among these distances:
17 16 0.23
18 16 0.23
19 37 0.54
ACGTcount: A:0.36, C:0.15, G:0.11, T:0.37
Consensus pattern (19 bp):
TCTAAGATTGCATATCATA
Found at i:13110961 original size:35 final size:35
Alignment explanation
Indices: 13110922--13111086 Score: 188
Period size: 35 Copynumber: 4.7 Consensus size: 35
13110912 TCCATGGAAA
* * *
13110922 AGTTGTGAAACGTAAGTATGGTATCATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCTATACTG
* *
13110957 AGTTGTGAAACGTAGGTATGGTATTAACTGTACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCTATACTG
*
13110992 AGTTGTGAAATGTAGGTATGGTATTATCTATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCTATACTG
** ** * *
13111027 AGTTAAGAAACGTAGGTATGACATT-TCCCATACCG
1 AGTTGTGAAACGTAGGTATGGTATTAT-CTATACTG
* *
13111062 AGTTGTGAAATGCAGGTATGGTATT
1 AGTTGTGAAACGTAGGTATGGTATT
13111087 TCAATAAGGA
Statistics
Matches: 108, Mismatches: 21, Indels: 2
0.82 0.16 0.02
Matches are distributed among these distances:
34 1 0.01
35 107 0.99
ACGTcount: A:0.30, C:0.11, G:0.25, T:0.33
Consensus pattern (35 bp):
AGTTGTGAAACGTAGGTATGGTATTATCTATACTG
Found at i:13113775 original size:19 final size:19
Alignment explanation
Indices: 13113734--13113776 Score: 68
Period size: 19 Copynumber: 2.3 Consensus size: 19
13113724 TGTCGGAATT
*
13113734 GTTAAGGCAAAGTGTGTCC
1 GTTAAGGCAAAGTGTGTCA
*
13113753 GTTAAGGCAAAGTGTGTTA
1 GTTAAGGCAAAGTGTGTCA
13113772 GTTAA
1 GTTAA
13113777 TTTAATATGT
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
19 22 1.00
ACGTcount: A:0.30, C:0.09, G:0.30, T:0.30
Consensus pattern (19 bp):
GTTAAGGCAAAGTGTGTCA
Found at i:13118318 original size:35 final size:35
Alignment explanation
Indices: 13118279--13118443 Score: 224
Period size: 35 Copynumber: 4.7 Consensus size: 35
13118269 TCCATGACAA
*
13118279 AGTTGTGAAACGTAGGTATGGTATCATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
*
13118314 AGTTGTGAAACGTAGGTATGGTATTAACCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
*
13118349 AGTTGTGAAACATAGGTATGGTATTATCCATACTG
1 AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
** * ** *
13118384 AGTTAAGAAACATAGGTATGACATT-TCCCATACCG
1 AGTTGTGAAACGTAGGTATGGTATTAT-CCATACTG
*
13118419 AGTTGTGAAATGTAGGTATGGTATT
1 AGTTGTGAAACGTAGGTATGGTATT
13118444 TCAATAAGGA
Statistics
Matches: 114, Mismatches: 15, Indels: 2
0.87 0.11 0.02
Matches are distributed among these distances:
34 1 0.01
35 113 0.99
ACGTcount: A:0.32, C:0.12, G:0.24, T:0.32
Consensus pattern (35 bp):
AGTTGTGAAACGTAGGTATGGTATTATCCATACTG
Found at i:13121638 original size:31 final size:31
Alignment explanation
Indices: 13121589--13121648 Score: 93
Period size: 31 Copynumber: 1.9 Consensus size: 31
13121579 TTGATCACTA
* *
13121589 AACTTTTAGGGCGTTTTCATTTTGGTCACCC
1 AACTTCTAGGGCGCTTTCATTTTGGTCACCC
*
13121620 AACTTCTAGGTCGCTTTCATTTTGGTCAC
1 AACTTCTAGGGCGCTTTCATTTTGGTCAC
13121649 TGGAAAATTT
Statistics
Matches: 26, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.17, C:0.23, G:0.18, T:0.42
Consensus pattern (31 bp):
AACTTCTAGGGCGCTTTCATTTTGGTCACCC
Found at i:13125945 original size:14 final size:15
Alignment explanation
Indices: 13125926--13125954 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
13125916 AATTTATTTT
13125926 TTTAAAATT-TAAAA
1 TTTAAAATTATAAAA
13125940 TTTAAAATTATAAAA
1 TTTAAAATTATAAAA
13125955 AAAATGTTTT
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 9 0.64
15 5 0.36
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (15 bp):
TTTAAAATTATAAAA
Found at i:13132459 original size:23 final size:22
Alignment explanation
Indices: 13132433--13132545 Score: 81
Period size: 23 Copynumber: 5.1 Consensus size: 22
13132423 AATTTAACCC
13132433 TATATATTTATTTCTATTATTAT
1 TATATATTTATTT-TATTATTAT
* *
13132456 TATATATATAATTTTTTTA-TAT
1 TATATAT-TTATTTTATTATTAT
* * * *
13132478 TGT-TATTTGTTTTATTTTTAA
1 TATATATTTATTTTATTATTAT
* *
13132499 TCT-TATTT-TTATATTATATAT
1 TATATATTTATTTTATTAT-TAT
*
13132520 TATATAATTATTTTATTATATAT
1 TATATATTTATTTTATTAT-TAT
13132543 TAT
1 TAT
13132546 TGCTATTTAT
Statistics
Matches: 70, Mismatches: 15, Indels: 10
0.74 0.16 0.11
Matches are distributed among these distances:
20 14 0.20
21 16 0.23
22 9 0.13
23 26 0.37
24 5 0.07
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.65
Consensus pattern (22 bp):
TATATATTTATTTTATTATTAT
Found at i:13132520 original size:7 final size:7
Alignment explanation
Indices: 13132508--13132564 Score: 53
Period size: 7 Copynumber: 8.0 Consensus size: 7
13132498 ATCTTATTTT
13132508 TATATTA
1 TATATTA
13132515 TATATTA
1 TATATTA
13132522 TATAATTA
1 TAT-ATTA
*
13132530 TTTTATTA
1 -TATATTA
13132538 TATATTA
1 TATATTA
**
13132545 T-TGCTA
1 TATATTA
*
13132551 TTTATTA
1 TATATTA
13132558 TATATTA
1 TATATTA
13132565 CTTTTCACAA
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
6 4 0.10
7 26 0.65
8 8 0.20
9 2 0.05
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.60
Consensus pattern (7 bp):
TATATTA
Found at i:13132538 original size:16 final size:15
Alignment explanation
Indices: 13132508--13132546 Score: 53
Period size: 15 Copynumber: 2.6 Consensus size: 15
13132498 ATCTTATTTT
*
13132508 TATATTA-TATATTA
1 TATATTATTTTATTA
13132522 TATAATTATTTTATTA
1 TAT-ATTATTTTATTA
13132538 TATATTATT
1 TATATTATT
13132547 GCTATTTATT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
14 3 0.14
15 10 0.45
16 9 0.41
ACGTcount: A:0.38, C:0.00, G:0.00, T:0.62
Consensus pattern (15 bp):
TATATTATTTTATTA
Found at i:13132743 original size:20 final size:19
Alignment explanation
Indices: 13132698--13132745 Score: 53
Period size: 20 Copynumber: 2.4 Consensus size: 19
13132688 ATAATTATTT
13132698 TATATTATGTCATTTTTTA
1 TATATTATGTCATTTTTTA
*
13132717 TACTATTATGT-TTTTTATCTA
1 TA-TATTATGTCATTTT-T-TA
13132738 TATATTAT
1 TATATTAT
13132746 TATTATTATT
Statistics
Matches: 25, Mismatches: 1, Indels: 5
0.81 0.03 0.16
Matches are distributed among these distances:
19 6 0.24
20 15 0.60
21 4 0.16
ACGTcount: A:0.27, C:0.06, G:0.04, T:0.62
Consensus pattern (19 bp):
TATATTATGTCATTTTTTA
Found at i:13133180 original size:24 final size:26
Alignment explanation
Indices: 13133132--13133180 Score: 66
Period size: 24 Copynumber: 2.0 Consensus size: 26
13133122 GCTCACTTAA
* *
13133132 TTTTATATTTATATGTATATTAATCC
1 TTTTATATGTATATGTATATAAATCC
13133158 TTTTATATGT-TAT-TATATAAATC
1 TTTTATATGTATATGTATATAAATC
13133181 ATTAGGTGTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
24 9 0.43
25 3 0.14
26 9 0.43
ACGTcount: A:0.33, C:0.06, G:0.04, T:0.57
Consensus pattern (26 bp):
TTTTATATGTATATGTATATAAATCC
Found at i:13138197 original size:43 final size:43
Alignment explanation
Indices: 13138141--13138371 Score: 342
Period size: 43 Copynumber: 5.3 Consensus size: 43
13138131 TTTATTTGAA
* * *
13138141 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAGG
1 AAAAGCGCTGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
* *
13138184 AAAAACGCTGCTAAAGGTCAAGGCTTTTAGTGGCGTTTGTGGG
1 AAAAGCGCTGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
*
13138227 AAAAGCG-TCGTTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCT-GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
13138270 AAAAGCGCTGCTAAAGGTCAAGGCTTTTTAGCGGCGTTTGTGGG
1 AAAAGCGCTGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTGGG
*
13138314 AAAAGCG-TCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAGG
1 AAAAGCGCT-GCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
13138357 AAAAGCG-TCGCTAAA
1 AAAAGCGCT-GCTAAA
13138372 AACCTTGACC
Statistics
Matches: 176, Mismatches: 8, Indels: 8
0.92 0.04 0.04
Matches are distributed among these distances:
42 1 0.01
43 133 0.76
44 42 0.24
ACGTcount: A:0.26, C:0.16, G:0.32, T:0.26
Consensus pattern (43 bp):
AAAAGCGCTGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
Found at i:13138352 original size:87 final size:86
Alignment explanation
Indices: 13138149--13138371 Score: 385
Period size: 87 Copynumber: 2.6 Consensus size: 86
13138139 AAAAAAACGC
*
13138149 CGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAGGAAAAACGCTGCTAAAGGTCAAGGCTTTTAG
1 CGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAGGAAAAGCGCTGCTAAAGGTCAAGGCTTTTAG
*
13138214 TGGCGTTTGTGGGAAAAGCGT
66 CGGCGTTTGTGGGAAAAGCGT
* *
13138235 CGTTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGGAAAAGCGCTGCTAAAGGTCAAGGCTTTTTA
1 CGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAGGAAAAGCGCTGCTAAAGGTCAAGGC-TTTTA
13138300 GCGGCGTTTGTGGGAAAAGCGT
65 GCGGCGTTTGTGGGAAAAGCGT
13138322 CGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAGGAAAAGCG-TCGCTAAA
1 CGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAGGAAAAGCGCT-GCTAAA
13138372 AACCTTGACC
Statistics
Matches: 129, Mismatches: 6, Indels: 3
0.93 0.04 0.02
Matches are distributed among these distances:
86 57 0.44
87 72 0.56
ACGTcount: A:0.25, C:0.16, G:0.33, T:0.26
Consensus pattern (86 bp):
CGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAGGAAAAGCGCTGCTAAAGGTCAAGGCTTTTAG
CGGCGTTTGTGGGAAAAGCGT
Found at i:13138386 original size:130 final size:129
Alignment explanation
Indices: 13138141--13138391 Score: 351
Period size: 130 Copynumber: 1.9 Consensus size: 129
13138131 TTTATTTGAA
13138141 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAGGAAAAACGCTGCTAAAGGTCAAG
1 AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAGGAAAAACGCTGCTAAAGGTCAAG
* * * *** * *
13138206 GCTTTTAGTGGCGTTTGTGGGAAAAGCGTCGTTAAAGGTCAAGGCTTTTAGCGGCGTTTGTGGG
66 GCTTTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAAACCAAGACCTTTAGCGGCGTTTGTGGG
* * * *
13138270 AAAAGCGCTGCTAAAGGTCAAGGCTTTTTAGCGGCGTTTGTGGGAAAAGCG-TCGCTAAAGGTCA
1 AAAAACGCCGCTAAAGGTCAAGGC-TTTTAGCGGCGTTTGTAGGAAAAACGCT-GCTAAAGGTCA
**
13138334 AGGCTTTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAAACCTTGACCTTTAGCGGCG
64 AGGCTTTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAAACCAAGACCTTTAGCGGCG
13138392 CTTTTTTTAC
Statistics
Matches: 106, Mismatches: 14, Indels: 3
0.86 0.11 0.02
Matches are distributed among these distances:
129 23 0.22
130 83 0.78
ACGTcount: A:0.26, C:0.17, G:0.31, T:0.25
Consensus pattern (129 bp):
AAAAACGCCGCTAAAGGTCAAGGCTTTTAGCGGCGTTTGTAGGAAAAACGCTGCTAAAGGTCAAG
GCTTTTAGCGGCGTTTGTAGGAAAAGCGTCGCTAAAAACCAAGACCTTTAGCGGCGTTTGTGGG
Found at i:13138501 original size:31 final size:31
Alignment explanation
Indices: 13138466--13138548 Score: 85
Period size: 31 Copynumber: 2.6 Consensus size: 31
13138456 TTTCCTGCAT
* *
13138466 TAAAATCCAACCAAATACAACAAATATAATA
1 TAAAATCCAACCAAAAACAACAAATATAACA
* * * *
13138497 TAAAATGCAGCCAAAAACAGCAAATTTAACA
1 TAAAATCCAACCAAAAACAACAAATATAACA
*
13138528 TAAAAAATACAACCAAAAACA
1 T--AAAATCCAACCAAAAACA
13138549 TTAATTCTAA
Statistics
Matches: 42, Mismatches: 8, Indels: 2
0.81 0.15 0.04
Matches are distributed among these distances:
31 26 0.62
33 16 0.38
ACGTcount: A:0.61, C:0.19, G:0.04, T:0.16
Consensus pattern (31 bp):
TAAAATCCAACCAAAAACAACAAATATAACA
Found at i:13144433 original size:9 final size:9
Alignment explanation
Indices: 13144419--13144546 Score: 112
Period size: 9 Copynumber: 13.6 Consensus size: 9
13144409 ATGTATTAGT
13144419 TAAGTTATG
1 TAAGTTATG
13144428 TAAGTTGCTATG
1 TAAG-T--TATG
*
13144440 TACGTTATG
1 TAAGTTATG
*
13144449 TGAGTTATG
1 TAAGTTATG
* *
13144458 TAAATTCTG
1 TAAGTTATG
13144467 TAAGTTATG
1 TAAGTTATG
*
13144476 TGAGTTATG
1 TAAGTTATG
13144485 TAAGTTGTTATG
1 TAA---GTTATG
*
13144497 TAAATTATG
1 TAAGTTATG
*
13144506 TAAGTTATA
1 TAAGTTATG
*
13144515 TGAGTTATG
1 TAAGTTATG
13144524 TAAGTTATG
1 TAAGTTATG
* *
13144533 TAATTTATT
1 TAAGTTATG
13144542 TAAGT
1 TAAGT
13144547 AATGATCAAT
Statistics
Matches: 94, Mismatches: 19, Indels: 12
0.75 0.15 0.10
Matches are distributed among these distances:
9 76 0.81
10 1 0.01
11 1 0.01
12 16 0.17
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.46
Consensus pattern (9 bp):
TAAGTTATG
Found at i:13144469 original size:39 final size:36
Alignment explanation
Indices: 13144423--13144546 Score: 117
Period size: 39 Copynumber: 3.3 Consensus size: 36
13144413 ATTAGTTAAG
13144423 TTATGTAAGTTGCTATGTACGTTATGTGAGTTATGTAAA
1 TTATGTAAGTT--TATGTA-GTTATGTGAGTTATGTAAA
* *
13144462 TTCTGTAAG-TTATGTGAGTTATGTAAGTTGTTATGTAAA
1 TTATGTAAGTTTATGT-AGTTATGT--G-AGTTATGTAAA
* *
13144501 TTATGTAAGTTATATG-AGTTATGTAAGTTATGTAAT
1 TTATGTAAGTT-TATGTAGTTATGTGAGTTATGTAAA
*
13144537 TTATTTAAGT
1 TTATGTAAGT
13144547 AATGATCAAT
Statistics
Matches: 72, Mismatches: 7, Indels: 15
0.77 0.07 0.16
Matches are distributed among these distances:
36 30 0.42
37 1 0.01
38 2 0.03
39 34 0.47
40 1 0.01
41 4 0.06
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.47
Consensus pattern (36 bp):
TTATGTAAGTTTATGTAGTTATGTGAGTTATGTAAA
Found at i:13144546 original size:57 final size:57
Alignment explanation
Indices: 13144419--13144546 Score: 157
Period size: 57 Copynumber: 2.2 Consensus size: 57
13144409 ATGTATTAGT
** * * *
13144419 TAAGTTATGTAAGTTGCTATGTACGTTATGTGAGTTATGTAAATTCTGTAAGTTATG
1 TAAGTTATGTAAGTTGCTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* * * *
13144476 TGAGTTATGTAAGTTGTTATGTAAATTATGTAAGTTATATGAGTTATGTAAGTTATG
1 TAAGTTATGTAAGTTGCTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
* *
13144533 TAATTTATTTAAGT
1 TAAGTTATGTAAGT
13144547 AATGATCAAT
Statistics
Matches: 59, Mismatches: 12, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
57 59 1.00
ACGTcount: A:0.30, C:0.02, G:0.21, T:0.46
Consensus pattern (57 bp):
TAAGTTATGTAAGTTGCTATGTAAATTATGTAAGTTATATAAATTATGTAAGTTATG
Found at i:13145089 original size:241 final size:241
Alignment explanation
Indices: 13144666--13145823 Score: 2199
Period size: 241 Copynumber: 4.8 Consensus size: 241
13144656 TGAATATAGT
13144666 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
* * *
13144731 TCGATATAAGGCAACCCATCAAGTTTCCAGCCTATATACTTTAAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
*
13144796 AGGTTGGAGAGAAGGTCAGCTATTGCTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
13144861 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTCTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTCTTG
*
13144907 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGAAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
13144972 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
13145037 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
13145102 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTCTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTCTTG
13145148 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
*
13145213 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTCAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
*
13145278 AGGTTGTAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
*
13145343 ATTCAATAGTAAATGAGCTCGATAAAACTTTTTTCAAGTCTTCTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTCTTG
*
13145389 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATTCATTATATCTTACAGC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
13145454 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
* *
13145519 AGGTTGTAGAGAAGGTCAGCTATTATTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
13145584 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTCTTG
196 ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTCTTG
*
13145630 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAAC
1 AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
13145695 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
66 TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
*
13145760 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAATCTACATGGTAATAAA
131 AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAA
13145824 ATTAATTCAT
Statistics
Matches: 899, Mismatches: 18, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
241 899 1.00
ACGTcount: A:0.33, C:0.15, G:0.18, T:0.34
Consensus pattern (241 bp):
AATTTTTTAAGATTCATCATACGTGGCGTTGTTACACCTAGGGAGGATCCATTATATCTTACAGC
TCGATATAAGGCAACCCGTCAGGTTTCCAGCCTATATACTTTGAATCTTTAAAATATTTAAAATA
AGGTTGGAGAGAAGGTCAGCTATTGTTGTAATTTTAATGGACAAGCAAGCTACATGGTAATAAAT
ATTCAATAGTAAATGAGCTCGATAGAACTTTTTTCAAGTCTTCTTG
Found at i:13145975 original size:23 final size:23
Alignment explanation
Indices: 13145945--13145994 Score: 100
Period size: 23 Copynumber: 2.2 Consensus size: 23
13145935 GGTCAAGTTT
13145945 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
13145968 ATTTAAAGGGCTGCAATTCATAC
1 ATTTAAAGGGCTGCAATTCATAC
13145991 ATTT
1 ATTT
13145995 GATTAATGTT
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.34, C:0.16, G:0.16, T:0.34
Consensus pattern (23 bp):
ATTTAAAGGGCTGCAATTCATAC
Found at i:13150235 original size:43 final size:45
Alignment explanation
Indices: 13150173--13150262 Score: 112
Period size: 43 Copynumber: 2.0 Consensus size: 45
13150163 GATAACAAAC
* * *
13150173 CCGGCCCATACCATTAACTTAATATATA-T-ACTATACCATTGAA
1 CCGGCCCAAACCATAAACTTAAAATATATTAACTATACCATTGAA
* * *
13150216 CCGGCCTAAACCATAAACTTAAAATATATTAATTCTACCATTGAA
1 CCGGCCCAAACCATAAACTTAAAATATATTAACTATACCATTGAA
13150261 CC
1 CC
13150263 CTAAACCATA
Statistics
Matches: 39, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
43 24 0.62
44 1 0.03
45 14 0.36
ACGTcount: A:0.39, C:0.26, G:0.07, T:0.29
Consensus pattern (45 bp):
CCGGCCCAAACCATAAACTTAAAATATATTAACTATACCATTGAA
Found at i:13150508 original size:29 final size:29
Alignment explanation
Indices: 13150457--13150512 Score: 78
Period size: 29 Copynumber: 1.9 Consensus size: 29
13150447 TAGTGTTTAT
*
13150457 GTTTTATGTTTTAAAATTTAGGGTTTAGG
1 GTTTAATGTTTTAAAATTTAGGGTTTAGG
*
13150486 GTTTAATG-TTTAAGATTTAAGGGTTTA
1 GTTTAATGTTTTAAAATTT-AGGGTTTA
13150513 CAGAAAGCCA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
28 9 0.38
29 15 0.62
ACGTcount: A:0.27, C:0.00, G:0.23, T:0.50
Consensus pattern (29 bp):
GTTTAATGTTTTAAAATTTAGGGTTTAGG
Found at i:13150849 original size:41 final size:40
Alignment explanation
Indices: 13150804--13151071 Score: 247
Period size: 41 Copynumber: 6.6 Consensus size: 40
13150794 AACTTTTTGC
*
13150804 GGCGTTTGGACCAAAAACGCCGCTATTAATCAGTTTTTAGT
1 GGCGTTTGGA-CAAAAACGCCGCTATTGATCAGTTTTTAGT
* * * * *
13150845 GGCGTTTTGGATAAAAACGCCACAATTGATTAGTTTTTTGT
1 GGCG-TTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
*
13150886 GGCGTTTGGGACAAAAACGCCGCAATTGATCAGTTTTTAGT
1 GGCGTTT-GGACAAAAACGCCGCTATTGATCAGTTTTTAGT
* ** *
13150927 AGCGTTTGAGATTAAAACGCCGCTATTGATCAGCTTTTAGT
1 GGCGTTTG-GACAAAAACGCCGCTATTGATCAGTTTTTAGT
* *
13150968 GGCGTTTTG-CGAAAAACGCCACTATTGA-CTAGTTTTTAGT
1 GGCGTTTGGAC-AAAAACGCCGCTATTGATC-AGTTTTTAGT
* * * * * * * *
13151008 GGCGTTTTTGCCAAAAATGCCGCTATAGTTTAGCTTTTATT
1 GGCG-TTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
13151049 GGCGTTTTGGAC--AAACGCCGCTA
1 GGCG-TTTGGACAAAAACGCCGCTA
13151072 ATGTATATTA
Statistics
Matches: 188, Mismatches: 31, Indels: 18
0.79 0.13 0.08
Matches are distributed among these distances:
39 11 0.06
40 33 0.18
41 137 0.73
42 7 0.04
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (40 bp):
GGCGTTTGGACAAAAACGCCGCTATTGATCAGTTTTTAGT
Found at i:13151371 original size:49 final size:52
Alignment explanation
Indices: 13151294--13151404 Score: 165
Period size: 49 Copynumber: 2.2 Consensus size: 52
13151284 TAACCCTATA
*
13151294 ATTAGATGAAATAAGATCACAAACCTTATGAATGCA-G-T-TGAATGATTTT
1 ATTAAATGAAATAAGATCACAAACCTTATGAATGCATGATGTGAATGATTTT
* *
13151343 ATTAAATGAAATAAGATGACAAACCTTATTAATGCATGCATGTGAATGATTTT
1 ATTAAATGAAATAAGATCACAAACCTTATGAATGCATG-ATGTGAATGATTTT
13151396 ATTAAATGA
1 ATTAAATGA
13151405 TTTATTTATT
Statistics
Matches: 55, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
49 33 0.60
50 1 0.02
52 1 0.02
53 20 0.36
ACGTcount: A:0.42, C:0.09, G:0.15, T:0.33
Consensus pattern (52 bp):
ATTAAATGAAATAAGATCACAAACCTTATGAATGCATGATGTGAATGATTTT
Found at i:13151547 original size:7 final size:7
Alignment explanation
Indices: 13151535--13151583 Score: 53
Period size: 7 Copynumber: 6.7 Consensus size: 7
13151525 GTAGGGTGTT
13151535 ATATATA
1 ATATATA
13151542 ATATATA
1 ATATATA
13151549 ATATATA
1 ATATATA
*
13151556 AAATTATA
1 ATA-TATA
*
13151564 TTAATATA
1 AT-ATATA
*
13151572 ATATATT
1 ATATATA
13151579 ATATA
1 ATATA
13151584 ATTAGAAAAT
Statistics
Matches: 35, Mismatches: 5, Indels: 4
0.80 0.11 0.09
Matches are distributed among these distances:
7 25 0.71
8 9 0.26
9 1 0.03
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (7 bp):
ATATATA
Found at i:13159332 original size:43 final size:44
Alignment explanation
Indices: 13159285--13159449 Score: 169
Period size: 43 Copynumber: 3.9 Consensus size: 44
13159275 GTTATTGAGT
*
13159285 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATTGTAT-
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTATA
*** * * *
13159328 TGTGATTGTGTGTAAGACCATGTCTGAGACATTGGCATCATATA
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTATA
* ** *
13159372 T-TGATT-CGTGTAAGACTTTATCTGGGACAGTGGCATCG-ATA
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTATA
* * *
13159413 TGTGATAACATGTAAGACCATATTTGGGATA-TGGCAT
1 TGTGATTACATGTAAGACCATATCTGGGACATTGGCAT
13159450 TGTTCGAGCT
Statistics
Matches: 99, Mismatches: 20, Indels: 7
0.79 0.16 0.06
Matches are distributed among these distances:
41 4 0.04
42 35 0.35
43 59 0.60
44 1 0.01
ACGTcount: A:0.28, C:0.13, G:0.25, T:0.34
Consensus pattern (44 bp):
TGTGATTACATGTAAGACCATATCTGGGACATTGGCATCGTATA
Found at i:13160130 original size:24 final size:22
Alignment explanation
Indices: 13160087--13160131 Score: 54
Period size: 24 Copynumber: 2.0 Consensus size: 22
13160077 CTTTGATATG
**
13160087 ATGAAATGGTATAATTTGAAGC
1 ATGAAATGGTATAAGATGAAGC
13160109 ATGAAATAGGTGATAAGATGAAG
1 ATGAAAT-GGT-ATAAGATGAAG
13160132 GGTAAATGCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
22 7 0.37
23 3 0.16
24 9 0.47
ACGTcount: A:0.44, C:0.02, G:0.27, T:0.27
Consensus pattern (22 bp):
ATGAAATGGTATAAGATGAAGC
Found at i:13161818 original size:21 final size:22
Alignment explanation
Indices: 13161792--13161850 Score: 61
Period size: 21 Copynumber: 2.8 Consensus size: 22
13161782 GTTTTAAGAA
*
13161792 TTGTTTTAGTA-TTATTTTTAT
1 TTGTTTTAATATTTATTTTTAT
*
13161813 TTGTTTTAATATTTGTTTTTAT
1 TTGTTTTAATATTTATTTTTAT
* *
13161835 GT-TTTTAA-ATATATTT
1 TTGTTTTAATATTTATTT
13161851 GATTTATTAT
Statistics
Matches: 32, Mismatches: 5, Indels: 3
0.80 0.12 0.08
Matches are distributed among these distances:
20 6 0.19
21 16 0.50
22 10 0.31
ACGTcount: A:0.22, C:0.00, G:0.08, T:0.69
Consensus pattern (22 bp):
TTGTTTTAATATTTATTTTTAT
Found at i:13161865 original size:26 final size:24
Alignment explanation
Indices: 13161821--13161870 Score: 73
Period size: 26 Copynumber: 2.0 Consensus size: 24
13161811 ATTTGTTTTA
*
13161821 ATATTTGTTTTTATGTTTTTAAAT
1 ATATTTGTTTTTATATTTTTAAAT
13161845 ATATTTGATTTATTATATTTTTAAAT
1 ATATTTG-TTT-TTATATTTTTAAAT
13161871 TTTTTTATTT
Statistics
Matches: 23, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
24 7 0.30
25 3 0.13
26 13 0.57
ACGTcount: A:0.30, C:0.00, G:0.06, T:0.64
Consensus pattern (24 bp):
ATATTTGTTTTTATATTTTTAAAT
Found at i:13163685 original size:26 final size:26
Alignment explanation
Indices: 13163656--13163737 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
13163646 TGATACAAAT
13163656 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13163682 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13163708 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13163734 TGAT
1 TGAT
13163738 GGGAATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:13166460 original size:16 final size:16
Alignment explanation
Indices: 13166439--13166470 Score: 55
Period size: 16 Copynumber: 2.0 Consensus size: 16
13166429 AATGGGTTTA
*
13166439 CAAAAACAAAGATTTT
1 CAAAAACAAAAATTTT
13166455 CAAAAACAAAAATTTT
1 CAAAAACAAAAATTTT
13166471 ATAAAGATTG
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.59, C:0.12, G:0.03, T:0.25
Consensus pattern (16 bp):
CAAAAACAAAAATTTT
Found at i:13170772 original size:26 final size:26
Alignment explanation
Indices: 13170743--13170824 Score: 164
Period size: 26 Copynumber: 3.2 Consensus size: 26
13170733 TGATACAAAT
13170743 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13170769 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13170795 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATGTTCCA
13170821 TGAT
1 TGAT
13170825 GGGAATTTCA
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 56 1.00
ACGTcount: A:0.30, C:0.07, G:0.27, T:0.35
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATGTTCCA
Found at i:13173546 original size:16 final size:16
Alignment explanation
Indices: 13173525--13173555 Score: 53
Period size: 16 Copynumber: 1.9 Consensus size: 16
13173515 AATGGGTTTA
*
13173525 CAAAAACAAAGATTTT
1 CAAAAACAAAAATTTT
13173541 CAAAAACAAAAATTT
1 CAAAAACAAAAATTT
13173556 ATAAAGATTG
Statistics
Matches: 14, Mismatches: 1, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
16 14 1.00
ACGTcount: A:0.61, C:0.13, G:0.03, T:0.23
Consensus pattern (16 bp):
CAAAAACAAAAATTTT
Found at i:13177633 original size:11 final size:11
Alignment explanation
Indices: 13177617--13177641 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
13177607 TTATATATAC
13177617 TAATAAAATAA
1 TAATAAAATAA
13177628 TAATAAAATAA
1 TAATAAAATAA
13177639 TAA
1 TAA
13177642 AATATCATAT
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:0.72, C:0.00, G:0.00, T:0.28
Consensus pattern (11 bp):
TAATAAAATAA
Found at i:13177962 original size:30 final size:31
Alignment explanation
Indices: 13177910--13177968 Score: 86
Period size: 30 Copynumber: 1.9 Consensus size: 31
13177900 CACCTTTAAA
*
13177910 ATATTTTCACTATTATCCCTTCAAATTTTTC
1 ATATTTACACTATTATCCCTTCAAATTTTTC
13177941 ATATTTACACT-TTAAT-CCTTCAAATTTT
1 ATATTTACACTATT-ATCCCTTCAAATTTT
13177969 GTGTATTTAC
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
30 14 0.54
31 12 0.46
ACGTcount: A:0.29, C:0.20, G:0.00, T:0.51
Consensus pattern (31 bp):
ATATTTACACTATTATCCCTTCAAATTTTTC
Found at i:13185496 original size:27 final size:29
Alignment explanation
Indices: 13185465--13185539 Score: 91
Period size: 27 Copynumber: 2.6 Consensus size: 29
13185455 ACAAGTTTAA
*
13185465 GTACTAAATTGAACAA-AAAAA-GCTTAG
1 GTACTAAATTGAAAAAGAAAAACGCTTAG
13185492 GTACTAAATTGAAAAAGAAAAACGCTTAG
1 GTACTAAATTGAAAAAGAAAAACGCTTAG
* *
13185521 ATATTAAATTAGGAAAAAG
1 GTACTAAATT--GAAAAAG
13185540 TAGTTACCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 4
0.85 0.06 0.08
Matches are distributed among these distances:
27 15 0.37
28 5 0.12
29 14 0.34
31 7 0.17
ACGTcount: A:0.53, C:0.08, G:0.16, T:0.23
Consensus pattern (29 bp):
GTACTAAATTGAAAAAGAAAAACGCTTAG
Found at i:13187777 original size:10 final size:10
Alignment explanation
Indices: 13187762--13187786 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13187752 AGTAGTTATT
13187762 TTTCTGTTAC
1 TTTCTGTTAC
13187772 TTTCTGTTAC
1 TTTCTGTTAC
13187782 TTTCT
1 TTTCT
13187787 TTCCTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.20, G:0.08, T:0.64
Consensus pattern (10 bp):
TTTCTGTTAC
Found at i:13188382 original size:10 final size:10
Alignment explanation
Indices: 13188367--13188391 Score: 50
Period size: 10 Copynumber: 2.5 Consensus size: 10
13188357 AGTAGTTATT
13188367 TTTCTGTTAC
1 TTTCTGTTAC
13188377 TTTCTGTTAC
1 TTTCTGTTAC
13188387 TTTCT
1 TTTCT
13188392 TTCCTTGCTT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
10 15 1.00
ACGTcount: A:0.08, C:0.20, G:0.08, T:0.64
Consensus pattern (10 bp):
TTTCTGTTAC
Found at i:13192198 original size:88 final size:90
Alignment explanation
Indices: 13192035--13192257 Score: 273
Period size: 88 Copynumber: 2.5 Consensus size: 90
13192025 CTTAAGGGTA
* * *
13192035 CAAAAA-GCCCTCAAACTTTTTCAAAAAAAGTAATTAAGCCCCTA----TTTTTTTGCACTCATT
1 CAAAAAGGCCCTCAAACATTTTC-AAAAAAGCAATTAAGCCCCTACTTTTTTTTTTGCACTCAAT
*
13192095 TGAATATTTAAACTTTCAAAATGCAT
65 TGAATACTTAAACTTTCAAAATGCAT
*
13192121 CAAAAAGGCCCTCAAACCTTTT-AAAAAA-CAATTAAGCCCCTACTTTTTTTTTTGCACTCAATT
1 CAAAAAGGCCCTCAAACATTTTCAAAAAAGCAATTAAGCCCCTACTTTTTTTTTTGCACTCAATT
* **
13192184 GGATACTTGTACTTTCAAAATGCAT
66 GAATACTTAAACTTTCAAAATGCAT
* * *
13192209 AAAAAAGACCCTCAAA-ATTTTCGAAAAAAGCAATTAAGCCCCTTCTTTT
1 CAAAAAGGCCCTCAAACATTTTC-AAAAAAGCAATTAAGCCCCTACTTTT
13192258 ATTAAAAATT
Statistics
Matches: 118, Mismatches: 11, Indels: 12
0.84 0.08 0.09
Matches are distributed among these distances:
84 13 0.11
85 6 0.05
86 6 0.05
87 18 0.15
88 51 0.43
89 6 0.05
90 18 0.15
ACGTcount: A:0.38, C:0.22, G:0.08, T:0.33
Consensus pattern (90 bp):
CAAAAAGGCCCTCAAACATTTTCAAAAAAGCAATTAAGCCCCTACTTTTTTTTTTGCACTCAATT
GAATACTTAAACTTTCAAAATGCAT
Found at i:13192769 original size:21 final size:21
Alignment explanation
Indices: 13192736--13192776 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
13192726 CTAAAATTTA
*
13192736 TTTTTTTAGTTTTT-ATAAAT
1 TTTTTTTAATTTTTAATAAAT
13192756 TTTTTTCTAATTTTTAATAAA
1 TTTTTT-TAATTTTTAATAAA
13192777 AGCAGAGGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 6 0.33
21 7 0.39
22 5 0.28
ACGTcount: A:0.29, C:0.02, G:0.02, T:0.66
Consensus pattern (21 bp):
TTTTTTTAATTTTTAATAAAT
Found at i:13198929 original size:35 final size:35
Alignment explanation
Indices: 13198855--13198943 Score: 99
Period size: 35 Copynumber: 2.5 Consensus size: 35
13198845 CCACTTTCAA
* * * * *
13198855 GGTGTTGCCTTGAAGGACCTATATACTGTTTATAT
1 GGTGTCGCCTCGAAGGACCTATATACCGTTCATAC
* *
13198890 GGTGTCGCTTCGTAGGACCTATATACCG-TCATCAC
1 GGTGTCGCCTCGAAGGACCTATATACCGTTCAT-AC
13198925 GGTGTCGCCTCGAAGGACC
1 GGTGTCGCCTCGAAGGACC
13198944 AATTGATAAC
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
34 3 0.07
35 41 0.93
ACGTcount: A:0.20, C:0.24, G:0.26, T:0.30
Consensus pattern (35 bp):
GGTGTCGCCTCGAAGGACCTATATACCGTTCATAC
Done.