Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_D13
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: 60343961
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.33
Warning! 596159 characters in sequence are not A, C, G, or T
File 26 of 204
Found at i:7346942 original size:10 final size:10
Alignment explanation
Indices: 7346908--7346950 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
7346898 TAAACTCTCA
7346908 AAAGATAAAT
1 AAAGATAAAT
* ** *
7346918 ACATTTAATT
1 AAAGATAAAT
7346928 AAAGATAAAT
1 AAAGATAAAT
7346938 AAAGATAAAT
1 AAAGATAAAT
7346948 AAA
1 AAA
7346951 ATTAAATCCT
Statistics
Matches: 25, Mismatches: 8, Indels: 0
0.76 0.24 0.00
Matches are distributed among these distances:
10 25 1.00
ACGTcount: A:0.65, C:0.02, G:0.07, T:0.26
Consensus pattern (10 bp):
AAAGATAAAT
Found at i:7347240 original size:18 final size:18
Alignment explanation
Indices: 7347217--7347253 Score: 74
Period size: 18 Copynumber: 2.1 Consensus size: 18
7347207 TCAAATTAGC
7347217 AGGATCATACTCAGAATA
1 AGGATCATACTCAGAATA
7347235 AGGATCATACTCAGAATA
1 AGGATCATACTCAGAATA
7347253 A
1 A
7347254 ATACATAATT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 19 1.00
ACGTcount: A:0.46, C:0.16, G:0.16, T:0.22
Consensus pattern (18 bp):
AGGATCATACTCAGAATA
Found at i:7349093 original size:18 final size:18
Alignment explanation
Indices: 7349054--7349101 Score: 60
Period size: 18 Copynumber: 2.7 Consensus size: 18
7349044 GAAACTGTCC
*
7349054 AAAATGATAAATACTTAA
1 AAAATGATAAAAACTTAA
* *
7349072 AAAATGATAAAAATTTAG
1 AAAATGATAAAAACTTAA
*
7349090 AAAATTATAAAA
1 AAAATGATAAAA
7349102 GAAACTAATA
Statistics
Matches: 26, Mismatches: 4, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 26 1.00
ACGTcount: A:0.65, C:0.02, G:0.06, T:0.27
Consensus pattern (18 bp):
AAAATGATAAAAACTTAA
Found at i:7354144 original size:18 final size:18
Alignment explanation
Indices: 7354095--7354148 Score: 65
Period size: 18 Copynumber: 3.0 Consensus size: 18
7354085 ATGATAATAG
7354095 TGATTCCGAGGATGGAAG-
1 TGATTCCGAGGAT-GAAGA
* * *
7354113 TGGTTCTGATGATGAAGA
1 TGATTCCGAGGATGAAGA
7354131 TGATTCCGAGGATGAAGA
1 TGATTCCGAGGATGAAGA
7354149 CGAAGAGGTT
Statistics
Matches: 29, Mismatches: 6, Indels: 2
0.78 0.16 0.05
Matches are distributed among these distances:
17 4 0.14
18 25 0.86
ACGTcount: A:0.30, C:0.09, G:0.35, T:0.26
Consensus pattern (18 bp):
TGATTCCGAGGATGAAGA
Found at i:7355280 original size:121 final size:121
Alignment explanation
Indices: 7355097--7355411 Score: 596
Period size: 121 Copynumber: 2.6 Consensus size: 121
7355087 ATATTAAGAA
7355097 TTTTATTAAATTATATTTAATAATAATTATG-TAAAATTATATTTTATAGTATTATATATTATGA
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTATAGTATTATATATTATGA
*
7355161 TTTTAGTAAATTCATATAAAAATATTTAATATTAAGAATTTTATTAAATTATATAT
66 TTTTAGTAAATTCATATAAAAATATCTAATATTAAGAATTTTATTAAATTATATAT
7355217 TTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTATAGTATTATATATTATGA
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTATAGTATTATATATTATGA
* *
7355282 TTTTAATAAATTCATATAAGAATATCTAATATTAAGAATTTTATTAAATTATATAT
66 TTTTAGTAAATTCATATAAAAATATCTAATATTAAGAATTTTATTAAATTATATAT
7355338 TTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTATAGTATTATATATTATGA
1 TTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTATAGTATTATATATTATGA
7355403 TTTTAGTAA
66 TTTTAGTAA
7355412 TTTAATATTA
Statistics
Matches: 190, Mismatches: 4, Indels: 1
0.97 0.02 0.01
Matches are distributed among these distances:
120 31 0.16
121 159 0.84
ACGTcount: A:0.43, C:0.01, G:0.04, T:0.51
Consensus pattern (121 bp):
TTTTATTAAATTATATTTAATAATAATTATGTTAAAATTATATTTTATAGTATTATATATTATGA
TTTTAGTAAATTCATATAAAAATATCTAATATTAAGAATTTTATTAAATTATATAT
Found at i:7355419 original size:22 final size:22
Alignment explanation
Indices: 7355374--7355444 Score: 65
Period size: 23 Copynumber: 3.1 Consensus size: 22
7355364 TTATGTTAAA
*
7355374 ATTAT-ATTTTATAGTATTATAT
1 ATTATGATTTTATAAT-TTATAT
7355396 ATTATGATTTTAGTAATTTA-AT
1 ATTATGATTTTA-TAATTTATAT
* *
7355418 ATTAAGAATTTTATTAAATTATAT
1 ATTATG-ATTTTA-TAATTTATAT
7355442 ATT
1 ATT
7355445 TTTATTAAAT
Statistics
Matches: 41, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
22 12 0.29
23 21 0.51
24 8 0.20
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (22 bp):
ATTATGATTTTATAATTTATAT
Found at i:7355665 original size:44 final size:45
Alignment explanation
Indices: 7355616--7355713 Score: 130
Period size: 45 Copynumber: 2.2 Consensus size: 45
7355606 CTATTACACC
7355616 TCCATT-CTATTCAACCAAACACA-AGAA-TACTATTACGCCTCTAT
1 TCCATTAC-ATTCAACCAAACA-ATAGAATTACTATTACGCCTCTAT
* **
7355660 TCCATTACATTCAACCAAACAATTGAATTGTTATTACGCCTCTAT
1 TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
7355705 TCCATTACA
1 TCCATTACA
7355714 GCGAACCAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 5
0.86 0.05 0.09
Matches are distributed among these distances:
43 1 0.02
44 22 0.46
45 25 0.52
ACGTcount: A:0.35, C:0.28, G:0.05, T:0.33
Consensus pattern (45 bp):
TCCATTACATTCAACCAAACAATAGAATTACTATTACGCCTCTAT
Found at i:7361886 original size:29 final size:31
Alignment explanation
Indices: 7361853--7361915 Score: 78
Period size: 32 Copynumber: 2.1 Consensus size: 31
7361843 TGGGTTATTT
7361853 ATAAATTAAGG-TTTA-GG-TATTTAAAATAA
1 ATAAATT-AGGATTTACGGATATTTAAAATAA
*
7361882 ATAAATTAGGATTTACGGATTTTTTAAAATAA
1 ATAAATTAGGATTTACGGA-TATTTAAAATAA
7361914 AT
1 AT
7361916 TTATGTTTAA
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
28 3 0.10
29 11 0.38
30 2 0.07
32 13 0.45
ACGTcount: A:0.46, C:0.02, G:0.13, T:0.40
Consensus pattern (31 bp):
ATAAATTAGGATTTACGGATATTTAAAATAA
Found at i:7362293 original size:125 final size:125
Alignment explanation
Indices: 7362002--7362669 Score: 682
Period size: 126 Copynumber: 5.4 Consensus size: 125
7361992 TTTTTGTTCA
* * * * *
7362002 ATCAGCAAAAGTACTAAAAAAAGCTTCTAGC-T-GAACACTATTTTTCTACAATAGTTTCT-AAA
1 ATCAGCAAAAGTACTGAAAAAAGCTCCCA-CATAG-ACGCTATTTTTCTACAGTAGTTTCTGAAA
* * *
7362064 AAATAATTTTGAGAAGATTGTTCTAAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACT
64 AAATAATTTTGAAAAGATGGTTCT-AAAAAATAGTGTCAAAAACGCTTCAAACAGGATGCACT
* * * * * * * *
7362127 GT--G---TAGT--T-AAAAAA-ATTCCACCTAGGCGCTTTTTTTCTACAGTAATTTCTG-AAAA
1 ATCAGCAAAAGTACTGAAAAAAGCTCCCACATAGACGCTATTTTTCTACAGTAGTTTCTGAAAAA
* * * * * * * *
7362182 ATAATTTTGAGAAGATAGTTTTGAAAAAATAGGGTCAAAAATGCTTTAAGCAGGATACACT
66 ATAATTTTGAAAAGATGGTTCT-AAAAAATAGTGTCAAAAACGCTTCAAACAGGATGCACT
* * *
7362243 TTCAACAAAAGTACTAGAACAAA-CTCCCACATAGACGCTATTTTTCTACAGTAGTTTCTGAAAA
1 ATCAGCAAAAGTACT-GAAAAAAGCTCCCACATAGACGCTATTTTTCTACAGTAGTTTCTGAAAA
* * * * **
7362307 AATAATTTTGAGAATATGGTTCTAAAAAAAAGTGTCAAAAACGCTTTAAGTAGGATGCACT
65 AATAATTTTGAAAAGATGGTTCTAAAAAATAGTGTCAAAAACGCTTCAAACAGGATGCACT
* * * * * *
7362368 ATCAGCAAAAGTACTGAAAAAAGCTCCCCCCTGGATGCTATTTTTTTACGGTAGTTTCTGAAAAA
1 ATCAGCAAAAGTACTGAAAAAAGCTCCCACATAGACGCTATTTTTCTACAGTAGTTTCTGAAAAA
* * *
7362433 ATAATTTTGAAAAAATGGTTCTAAGAAAATAATGTAAAAAACGCTTCAAACAGGATGCACT
66 ATAATTTTGAAAAGATGGTTCTAA-AAAATAGTGTCAAAAACGCTTCAAACAGGATGCACT
* * ** *
7362494 GTCAGCAAAAGTACT-AAAACAAGCTCCAAGTTGGACGCTATTTTTCTACAGTAGTTTCTGAAAA
1 ATCAGCAAAAGTACTGAAAA-AAGCTCCCACATAGACGCTATTTTTCTACAGTAGTTTCTGAAAA
* * *
7362558 AATAATTTTGAAAAGATGATTTTGAAAAAATAGTGTCAAAAATGCTTCAAACAGGATGCACT
65 AATAATTTTGAAAAGATGGTTCT-AAAAAATAGTGTCAAAAACGCTTCAAACAGGATGCACT
* * *
7362620 ATCAGTAAAAGTACTGAAAAAAGCTCCCACATAGATGCTCTTTTTCTACA
1 ATCAGCAAAAGTACTGAAAAAAGCTCCCACATAGACGCTATTTTTCTACA
7362670 ATACATCATG
Statistics
Matches: 452, Mismatches: 73, Indels: 35
0.81 0.13 0.06
Matches are distributed among these distances:
115 1 0.00
116 84 0.19
117 7 0.02
118 1 0.00
120 3 0.01
121 3 0.01
123 2 0.00
124 6 0.01
125 145 0.32
126 194 0.43
127 6 0.01
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (125 bp):
ATCAGCAAAAGTACTGAAAAAAGCTCCCACATAGACGCTATTTTTCTACAGTAGTTTCTGAAAAA
ATAATTTTGAAAAGATGGTTCTAAAAAATAGTGTCAAAAACGCTTCAAACAGGATGCACT
Found at i:7362535 original size:251 final size:249
Alignment explanation
Indices: 7362003--7362669 Score: 746
Period size: 251 Copynumber: 2.7 Consensus size: 249
7361993 TTTTGTTCAA
* * * * * * *
7362003 TCAGCAAAAGTACTAAAAAAAGCTTCTAGCTGAACACTATTTTTCTACAATAGTTTCT-AAAAAA
1 TCAGCAAAAGTACTAAAACAAGCTCCAAGATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAA
* *
7362067 TAATTTTGAGAAGATTGTTCTAAAAAAATAGTGTCAAAAACGCTTCAAGCAGGATGCACTGT--G
66 TAATTTTGAGAAGATGGTTCTAAAAAAA-AGTGTCAAAAACGCTTCAAGCAGGATGCACTATCAG
* * *
7362130 --TAGT--T-AAAAAA-ATTCCACCTAGGCGCTTTTTTTCTACAGTAATTTCTGAAAAATAATTT
130 AAAAGTACTGAAAAAAGCTCCCACCTAGGCGCTTTTTTTCTACAGTAATTTCTGAAAAATAATTT
* * * * * * * * *
7362189 TGAGAAGATAGTTTTGAAAAAATAGGGTCAAAAATGCTTTAAGCAGGATACACTT
195 TGAAAAAATAGTTCTGAAAAAATAAGGTAAAAAACGCTTCAAACAGGATACACTG
* * * * * *
7362244 TCAACAAAAGTACTAGAACAAACTCCCACATAGACGCTATTTTTCTACAGTAGTTTCTGAAAAAA
1 TCAGCAAAAGTACTAAAACAAGCTCCAAGATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAA
* * *
7362309 TAATTTTGAGAATATGGTTCTAAAAAAAAGTGTCAAAAACGCTTTAAGTAGGATGCACTATCAGC
66 TAATTTTGAGAAGATGGTTCTAAAAAAAAGTGTCAAAAACGCTTCAAGCAGGATGCACTATCAG-
* * * *
7362374 AAAAGTACTGAAAAAAGCTCCCCCCT-GGATGCTATTTTTT-TACGGTAGTTTCTGAAAAAATAA
130 AAAAGTACTGAAAAAAGCTCCCACCTAGG-CGCT-TTTTTTCTACAGTAATTTCTG-AAAAATAA
* * *
7362437 TTTTGAAAAAATGGTTCT-AAGAAAATAATGTAAAAAACGCTTCAAACAGGATGCACTG
192 TTTTGAAAAAATAGTTCTGAA-AAAATAAGGTAAAAAACGCTTCAAACAGGATACACTG
*
7362495 TCAGCAAAAGTACTAAAACAAGCTCCAAGTTGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAA
1 TCAGCAAAAGTACTAAAACAAGCTCCAAGATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAA
* * * * * *
7362560 TAATTTTGAAAAGATGATTTTGAAAAAATAGTGTCAAAAATGCTTCAAACAGGATGCACTATCAG
66 TAATTTTGAGAAGATGGTTCT-AAAAAAAAGTGTCAAAAACGCTTCAAGCAGGATGCACTATCAG
* ** *
7362625 TAAAAGTACTGAAAAAAGCTCCCACATAGATGCTCTTTTTCTACA
130 -AAAAGTACTGAAAAAAGCTCCCACCTAGGCGCTTTTTTTCTACA
7362670 ATACATCATG
Statistics
Matches: 351, Mismatches: 58, Indels: 23
0.81 0.13 0.05
Matches are distributed among these distances:
241 76 0.22
242 32 0.09
243 1 0.00
246 3 0.01
248 1 0.00
249 8 0.02
250 23 0.07
251 137 0.39
252 69 0.20
253 1 0.00
ACGTcount: A:0.40, C:0.15, G:0.15, T:0.29
Consensus pattern (249 bp):
TCAGCAAAAGTACTAAAACAAGCTCCAAGATGGACGCTATTTTTCTACAGTAGTTTCTGAAAAAA
TAATTTTGAGAAGATGGTTCTAAAAAAAAGTGTCAAAAACGCTTCAAGCAGGATGCACTATCAGA
AAAGTACTGAAAAAAGCTCCCACCTAGGCGCTTTTTTTCTACAGTAATTTCTGAAAAATAATTTT
GAAAAAATAGTTCTGAAAAAATAAGGTAAAAAACGCTTCAAACAGGATACACTG
Found at i:7362571 original size:14 final size:14
Alignment explanation
Indices: 7362552--7362589 Score: 58
Period size: 14 Copynumber: 2.7 Consensus size: 14
7362542 CAGTAGTTTC
7362552 TGAAAAAATAATTT
1 TGAAAAAATAATTT
* *
7362566 TGAAAAGATGATTT
1 TGAAAAAATAATTT
7362580 TGAAAAAATA
1 TGAAAAAATA
7362590 GTGTCAAAAA
Statistics
Matches: 20, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
14 20 1.00
ACGTcount: A:0.55, C:0.00, G:0.13, T:0.32
Consensus pattern (14 bp):
TGAAAAAATAATTT
Found at i:7362769 original size:25 final size:25
Alignment explanation
Indices: 7362740--7362811 Score: 101
Period size: 25 Copynumber: 2.9 Consensus size: 25
7362730 TTATAGCAAG
7362740 AGAAATT-AGAGAAGTTCAGAAGAAT
1 AGAAATTGA-AGAAGTTCAGAAGAAT
*
7362765 AGAAATTGAAGGAGTTCAGAAGAAT
1 AGAAATTGAAGAAGTTCAGAAGAAT
* *
7362790 ATAAATTGAAGAAGTTGAGAAG
1 AGAAATTGAAGAAGTTCAGAAG
7362812 GTATAGGTTG
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
25 41 0.98
26 1 0.02
ACGTcount: A:0.50, C:0.03, G:0.26, T:0.21
Consensus pattern (25 bp):
AGAAATTGAAGAAGTTCAGAAGAAT
Found at i:7362867 original size:13 final size:13
Alignment explanation
Indices: 7362849--7362873 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7362839 TTATACGAAT
7362849 CATTATATTTTTG
1 CATTATATTTTTG
7362862 CATTATATTTTT
1 CATTATATTTTT
7362874 TGTTTTGAAT
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:0.24, C:0.08, G:0.04, T:0.64
Consensus pattern (13 bp):
CATTATATTTTTG
Found at i:7367992 original size:17 final size:18
Alignment explanation
Indices: 7367970--7368004 Score: 54
Period size: 18 Copynumber: 2.0 Consensus size: 18
7367960 ATTTGGGTCA
7367970 TGTGGG-CCACAAGGGCG
1 TGTGGGCCCACAAGGGCG
*
7367987 TGTGGGCCCACACGGGCG
1 TGTGGGCCCACAAGGGCG
7368005 AACATCATGG
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.14, C:0.29, G:0.46, T:0.11
Consensus pattern (18 bp):
TGTGGGCCCACAAGGGCG
Found at i:7368421 original size:23 final size:24
Alignment explanation
Indices: 7368387--7368431 Score: 58
Period size: 23 Copynumber: 1.9 Consensus size: 24
7368377 TTATATCCCC
*
7368387 ACATGGAGTGTAG-GGTTGGATGG
1 ACATGGAGTGTAGAGGCTGGATGG
7368410 ACATGGTA-TGTAGAGGCTGGAT
1 ACATGG-AGTGTAGAGGCTGGAT
7368432 AGGTAGAATT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
23 11 0.58
24 8 0.42
ACGTcount: A:0.24, C:0.07, G:0.42, T:0.27
Consensus pattern (24 bp):
ACATGGAGTGTAGAGGCTGGATGG
Found at i:7368987 original size:18 final size:18
Alignment explanation
Indices: 7368958--7369019 Score: 61
Period size: 18 Copynumber: 3.3 Consensus size: 18
7368948 AAATAAATGT
*
7368958 TTTGAAATTGAATAACGA
1 TTTGAAAATGAATAACGA
* * *
7368976 TTTGTAAATGAATAATGT
1 TTTGAAAATGAATAACGA
*
7368994 TTTGAAAATGAACGACACGA
1 TTTGAAAATGAA-TA-ACGA
7369014 TTTGAA
1 TTTGAA
7369020 GTTAACATAA
Statistics
Matches: 34, Mismatches: 8, Indels: 2
0.77 0.18 0.05
Matches are distributed among these distances:
18 25 0.74
19 1 0.03
20 8 0.24
ACGTcount: A:0.42, C:0.06, G:0.18, T:0.34
Consensus pattern (18 bp):
TTTGAAAATGAATAACGA
Found at i:7370048 original size:18 final size:17
Alignment explanation
Indices: 7370010--7370048 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
7370000 GAGTCTTATT
*
7370010 TTTTTGCCCAAGCCTAT
1 TTTTTGCCCAAGCCTAC
*
7370027 TTTTTGCCCAAGGCTTAC
1 TTTTTGCCCAA-GCCTAC
7370045 TTTT
1 TTTT
7370049 CGGGAGGGCC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.15, C:0.26, G:0.13, T:0.46
Consensus pattern (17 bp):
TTTTTGCCCAAGCCTAC
Found at i:7372988 original size:12 final size:12
Alignment explanation
Indices: 7372973--7373026 Score: 51
Period size: 12 Copynumber: 4.8 Consensus size: 12
7372963 TAATTTTTCC
7372973 AAATTTCTCTCT
1 AAATTTCTCTCT
*
7372985 AAA-TT-TCTCA
1 AAATTTCTCTCT
***
7372995 AAAAAGCTCTC-
1 AAATTTCTCTCT
7373006 AAATTTCTCTCT
1 AAATTTCTCTCT
7373018 AAATTTCTC
1 AAATTTCTC
7373027 AAAGCTCTCT
Statistics
Matches: 33, Mismatches: 6, Indels: 6
0.73 0.13 0.13
Matches are distributed among these distances:
10 7 0.21
11 10 0.30
12 16 0.48
ACGTcount: A:0.33, C:0.24, G:0.02, T:0.41
Consensus pattern (12 bp):
AAATTTCTCTCT
Found at i:7372989 original size:22 final size:22
Alignment explanation
Indices: 7372943--7372990 Score: 55
Period size: 22 Copynumber: 2.2 Consensus size: 22
7372933 CCCCCCGCCT
*
7372943 ATTTTTCACACAATTTCCTTTA
1 ATTTTTCACACAATTTCCTTAA
7372965 ATTTTTC-CA-AATTTCTCTCTAA
1 ATTTTTCACACAATTTC-CT-TAA
7372987 ATTT
1 ATTT
7372991 CTCAAAAAAG
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
20 6 0.26
21 4 0.17
22 13 0.57
ACGTcount: A:0.27, C:0.21, G:0.00, T:0.52
Consensus pattern (22 bp):
ATTTTTCACACAATTTCCTTAA
Found at i:7373035 original size:21 final size:21
Alignment explanation
Indices: 7373002--7373042 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
7372992 TCAAAAAAGC
**
7373002 TCTCAAATTTCTCTCTAAATT
1 TCTCAAAGCTCTCTCTAAATT
*
7373023 TCTCAAAGCTCTCTTTAAAT
1 TCTCAAAGCTCTCTCTAAAT
7373043 CACAATTTCT
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.29, C:0.24, G:0.02, T:0.44
Consensus pattern (21 bp):
TCTCAAAGCTCTCTCTAAATT
Found at i:7374756 original size:25 final size:25
Alignment explanation
Indices: 7374719--7374801 Score: 98
Period size: 25 Copynumber: 3.3 Consensus size: 25
7374709 TCAACAACTC
* * *
7374719 ACGAACTGTGAATCGATAAGCTCAT
1 ACGAGCTGAGAATCGGTAAGCTCAT
7374744 ACGAGCTGAGAATCGGTAAGCTC-T
1 ACGAGCTGAGAATCGGTAAGCTCAT
*
7374768 CACGAGCT-ACAAATCGGTAAGCTCAT
1 -ACGAGCTGA-GAATCGGTAAGCTCAT
7374794 ACGAGCTG
1 ACGAGCTG
7374802 TGGTGTGTCC
Statistics
Matches: 50, Mismatches: 4, Indels: 7
0.82 0.07 0.11
Matches are distributed among these distances:
24 2 0.04
25 47 0.94
26 1 0.02
ACGTcount: A:0.33, C:0.23, G:0.24, T:0.20
Consensus pattern (25 bp):
ACGAGCTGAGAATCGGTAAGCTCAT
Found at i:7381169 original size:14 final size:14
Alignment explanation
Indices: 7381146--7381185 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
7381136 TACAAAAAGT
*
7381146 AAAACATTTTCCAG
1 AAAACATTTTACAG
* *
7381160 AAATCATTTTACGG
1 AAAACATTTTACAG
7381174 AAAACATTTTAC
1 AAAACATTTTAC
7381186 TGTCAATCAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
14 22 1.00
ACGTcount: A:0.42, C:0.17, G:0.07, T:0.33
Consensus pattern (14 bp):
AAAACATTTTACAG
Found at i:7393776 original size:22 final size:22
Alignment explanation
Indices: 7393749--7393799 Score: 93
Period size: 22 Copynumber: 2.3 Consensus size: 22
7393739 CTCTCTAATC
7393749 CTCTCAATTTCCTTCCAAAATT
1 CTCTCAATTTCCTTCCAAAATT
*
7393771 CTCTCAATTTCCTTCTAAAATT
1 CTCTCAATTTCCTTCCAAAATT
7393793 CTCTCAA
1 CTCTCAA
7393800 ACTCATATTT
Statistics
Matches: 28, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
22 28 1.00
ACGTcount: A:0.27, C:0.31, G:0.00, T:0.41
Consensus pattern (22 bp):
CTCTCAATTTCCTTCCAAAATT
Found at i:7393878 original size:11 final size:11
Alignment explanation
Indices: 7393858--7393908 Score: 54
Period size: 10 Copynumber: 4.9 Consensus size: 11
7393848 TTTAAAATAA
7393858 TTATAATTTTT
1 TTATAATTTTT
7393869 TTAT-ATTTTT
1 TTATAATTTTT
* **
7393879 TTAAAATAATT
1 TTATAATTTTT
7393890 TTA-AATTTTT
1 TTATAATTTTT
7393900 TTAT-ATTTT
1 TTATAATTTT
7393909 CATCAATGGC
Statistics
Matches: 33, Mismatches: 5, Indels: 5
0.77 0.12 0.12
Matches are distributed among these distances:
10 22 0.67
11 11 0.33
ACGTcount: A:0.31, C:0.00, G:0.00, T:0.69
Consensus pattern (11 bp):
TTATAATTTTT
Found at i:7393881 original size:30 final size:31
Alignment explanation
Indices: 7393845--7393908 Score: 112
Period size: 30 Copynumber: 2.1 Consensus size: 31
7393835 CTCAAATCTA
7393845 TTTTTTAAAATAATTAT-AATTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTTTATAT
*
7393875 TTTTTTAAAATAATTTTAAATTTTTTTATAT
1 TTTTTTAAAATAATTATAAATTTTTTTATAT
7393906 TTT
1 TTT
7393909 CATCAATGGC
Statistics
Matches: 32, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
30 16 0.50
31 16 0.50
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (31 bp):
TTTTTTAAAATAATTATAAATTTTTTTATAT
Found at i:7394049 original size:22 final size:22
Alignment explanation
Indices: 7394015--7394057 Score: 52
Period size: 22 Copynumber: 2.0 Consensus size: 22
7394005 TAAGATTTTT
*
7394015 TTATTTATATATT-TTTAGTTAA
1 TTATTAATATATTGTTT-GTTAA
*
7394037 TTATTAATTTATTGTTTGTTA
1 TTATTAATATATTGTTTGTTA
7394058 TAAAAGTTTA
Statistics
Matches: 18, Mismatches: 2, Indels: 2
0.82 0.09 0.09
Matches are distributed among these distances:
22 15 0.83
23 3 0.17
ACGTcount: A:0.28, C:0.00, G:0.07, T:0.65
Consensus pattern (22 bp):
TTATTAATATATTGTTTGTTAA
Found at i:7394280 original size:37 final size:37
Alignment explanation
Indices: 7394237--7394307 Score: 142
Period size: 37 Copynumber: 1.9 Consensus size: 37
7394227 GACCCGAGAC
7394237 GCGCACATTTCATCTTCCATGTGGAGAGTGCACTCTA
1 GCGCACATTTCATCTTCCATGTGGAGAGTGCACTCTA
7394274 GCGCACATTTCATCTTCCATGTGGAGAGTGCACT
1 GCGCACATTTCATCTTCCATGTGGAGAGTGCACT
7394308 ATCACTCTAG
Statistics
Matches: 34, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 34 1.00
ACGTcount: A:0.21, C:0.27, G:0.23, T:0.30
Consensus pattern (37 bp):
GCGCACATTTCATCTTCCATGTGGAGAGTGCACTCTA
Found at i:7396760 original size:122 final size:125
Alignment explanation
Indices: 7396470--7396805 Score: 509
Period size: 122 Copynumber: 2.7 Consensus size: 125
7396460 CCCAAACTTG
* *
7396470 CTACTGTAGCAAAATTGCGTCCACGAGGGCGCGATTTCATAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
** * *
7396535 TAGAAATTATTTTATACTATTTACTCAGAAACATCAGAAAAAAAATTATTTCTTACATGAC
66 TAGAAACGATTTTATACTATTTGCTAAGAAACA-CAGAAAAAAAATTATTTCTTACATGAC
*
7396596 CTACTGTAGCAAAATCGCGTCCATGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
* *
7396661 TAGAAACGATTTTATACTATTTGCTAAGAAA-A-A-TAAAAAAATTATTTCTTACGTGAC
66 TAGAAACGATTTTATACTATTTGCTAAGAAACACAGAAAAAAAATTATTTCTTACATGAC
* * *
7396718 CTACTGTAGCAAAATCGCGTCCACGAGGGTGCAATTTCACAATTTTTTCTCAAATAGCATCCT-G
1 CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
*
7396782 TTAGAAGCGATTTTATACTATTTG
66 -TAGAAACGATTTTATACTATTTG
7396806 ACCAGAGACG
Statistics
Matches: 195, Mismatches: 14, Indels: 6
0.91 0.07 0.03
Matches are distributed among these distances:
121 1 0.01
122 103 0.53
123 1 0.01
125 1 0.01
126 89 0.46
ACGTcount: A:0.33, C:0.20, G:0.15, T:0.32
Consensus pattern (125 bp):
CTACTGTAGCAAAATCGCGTCCACGAGGGCGCGATTTCACAATTTCTTCTCAAATAGCATCCTCG
TAGAAACGATTTTATACTATTTGCTAAGAAACACAGAAAAAAAATTATTTCTTACATGAC
Found at i:7397350 original size:7 final size:7
Alignment explanation
Indices: 7397313--7397413 Score: 55
Period size: 7 Copynumber: 13.7 Consensus size: 7
7397303 TTTTTCGTTG
7397313 TTTATTT
1 TTTATTT
7397320 GTTT-TTT
1 -TTTATTT
7397327 ATTTACTTT
1 -TTTA-TTT
*
7397336 TTCAATTT
1 TT-TATTT
7397344 TTTATTT
1 TTTATTT
* **
7397351 ATTTGTCA
1 -TTTATTT
*
7397359 TTCATTT
1 TTTATTT
7397366 TTTATTT
1 TTTATTT
7397373 GTTT-TTT
1 -TTTATTT
7397380 GTTTATTT
1 -TTTATTT
7397388 ATTTA-TT
1 -TTTATTT
*
7397395 TTTATTA
1 TTTATTT
7397402 TTTATTT
1 TTTATTT
7397409 TTTAT
1 TTTAT
7397414 AATATTTTAT
Statistics
Matches: 72, Mismatches: 14, Indels: 15
0.71 0.14 0.15
Matches are distributed among these distances:
6 4 0.06
7 40 0.56
8 24 0.33
9 4 0.06
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (7 bp):
TTTATTT
Found at i:7397353 original size:4 final size:4
Alignment explanation
Indices: 7397313--7397413 Score: 54
Period size: 4 Copynumber: 26.2 Consensus size: 4
7397303 TTTTTCGTTG
* * * *
7397313 TTTA TTTG TTT- TTTA TTTA CTTT- TTCAA TTT- TTTA TTTA TTT- GTCA
1 TTTA TTTA TTTA TTTA TTTA -TTTA TT-TA TTTA TTTA TTTA TTTA TTTA
* * * *
7397359 TTCA TTT- TTTA TTTG TTT- TTTG TTTA TTTA TTTA TTTT TATTA TTTA
1 TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA TTTA T-TTA TTTA
7397406 TTT- TTTA T
1 TTTA TTTA T
7397414 AATATTTTAT
Statistics
Matches: 76, Mismatches: 11, Indels: 20
0.71 0.10 0.19
Matches are distributed among these distances:
3 18 0.24
4 50 0.66
5 8 0.11
ACGTcount: A:0.17, C:0.04, G:0.04, T:0.75
Consensus pattern (4 bp):
TTTA
Found at i:7397402 original size:17 final size:17
Alignment explanation
Indices: 7397382--7397431 Score: 57
Period size: 17 Copynumber: 2.9 Consensus size: 17
7397372 TGTTTTTTGT
7397382 TTATTTATTTATTTTTA
1 TTATTTATTTATTTTTA
*
7397399 TTATTTATTT-TTTATA
1 TTATTTATTTATTTTTA
* *
7397415 ATATTTTATGTATTTTT
1 TTA-TTTATTTATTTTT
7397432 GTATATTTAC
Statistics
Matches: 27, Mismatches: 4, Indels: 3
0.79 0.12 0.09
Matches are distributed among these distances:
16 7 0.26
17 16 0.59
18 4 0.15
ACGTcount: A:0.24, C:0.00, G:0.02, T:0.74
Consensus pattern (17 bp):
TTATTTATTTATTTTTA
Found at i:7397404 original size:13 final size:14
Alignment explanation
Indices: 7397364--7397410 Score: 60
Period size: 13 Copynumber: 3.4 Consensus size: 14
7397354 TGTCATTCAT
* *
7397364 TTTTTATTTGTTTT
1 TTTTTATTTATTTA
7397378 TTGTTTATTTATTTA
1 TT-TTTATTTATTTA
7397393 TTTTTA-TTATTTA
1 TTTTTATTTATTTA
7397406 TTTTT
1 TTTTT
7397411 TATAATATTT
Statistics
Matches: 30, Mismatches: 2, Indels: 3
0.86 0.06 0.09
Matches are distributed among these distances:
13 12 0.40
14 6 0.20
15 12 0.40
ACGTcount: A:0.15, C:0.00, G:0.04, T:0.81
Consensus pattern (14 bp):
TTTTTATTTATTTA
Found at i:7397422 original size:53 final size:53
Alignment explanation
Indices: 7397313--7397440 Score: 129
Period size: 53 Copynumber: 2.4 Consensus size: 53
7397303 TTTTTCGTTG
* * *
7397313 TTTATTTGTTTTTTATTTACTTT-TTCAATTTTTTATTTATTTGTCATTCATTT
1 TTTATTTGTTTTTTGTTTA-TTTATTCAATTTTTTATTTATTTGTCATTAATAT
* * * *
7397366 TTTATTTGTTTTTTGTTTATTTATTTATTTTTATTATTTATTTTTTA-TAATAT
1 TTTATTTGTTTTTTGTTTATTTATTCAATTTT-TTATTTATTTGTCATTAATAT
*
7397419 TTTA--TGTATTTTTGTATATTTA
1 TTTATTTGT-TTTTTGTTTATTTA
7397441 CTGTAGATTT
Statistics
Matches: 64, Mismatches: 8, Indels: 7
0.81 0.10 0.09
Matches are distributed among these distances:
51 3 0.05
52 16 0.25
53 33 0.52
54 12 0.19
ACGTcount: A:0.20, C:0.03, G:0.05, T:0.73
Consensus pattern (53 bp):
TTTATTTGTTTTTTGTTTATTTATTCAATTTTTTATTTATTTGTCATTAATAT
Found at i:7399520 original size:16 final size:16
Alignment explanation
Indices: 7399486--7399538 Score: 63
Period size: 16 Copynumber: 3.3 Consensus size: 16
7399476 ATGACATTAG
7399486 TCATGCAATACTCAAT
1 TCATGCAATACTCAAT
*
7399502 TCATG-AATACATCATT
1 TCATGCAATAC-TCAAT
* *
7399518 TCATACCATACTCAAT
1 TCATGCAATACTCAAT
7399534 TCATG
1 TCATG
7399539 AGTATATAAC
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.17
16 21 0.70
17 4 0.13
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.34
Consensus pattern (16 bp):
TCATGCAATACTCAAT
Found at i:7399771 original size:40 final size:41
Alignment explanation
Indices: 7399727--7399824 Score: 135
Period size: 41 Copynumber: 2.4 Consensus size: 41
7399717 ACCAGTTTGG
* * * * *
7399727 CACCCAGTGCCTCATTGGAT-AATTTGAAGTAGTAAATTGA
1 CACCCAGTGTCTCATCGAATAAATCTGAAGTAATAAATTGA
7399767 CACCCAGTGTCTCATCGAATAAATCTGAAGTAATAAATTGA
1 CACCCAGTGTCTCATCGAATAAATCTGAAGTAATAAATTGA
*
7399808 CACCTAGTGTCTCATCG
1 CACCCAGTGTCTCATCG
7399825 GTTAAACCGA
Statistics
Matches: 51, Mismatches: 6, Indels: 1
0.88 0.10 0.02
Matches are distributed among these distances:
40 17 0.33
41 34 0.67
ACGTcount: A:0.33, C:0.21, G:0.17, T:0.29
Consensus pattern (41 bp):
CACCCAGTGTCTCATCGAATAAATCTGAAGTAATAAATTGA
Found at i:7400725 original size:25 final size:24
Alignment explanation
Indices: 7400697--7400768 Score: 81
Period size: 25 Copynumber: 2.8 Consensus size: 24
7400687 TTCGCATATG
7400697 TTTCTTTCTTCTTTCTCTTTTTCTT
1 TTTCTTTCTTCTTTCT-TTTTTCTT
* *
7400722 TTTCTTTCTTTCCTTTCTGTTTTGTT
1 TTTCTTTC-TT-CTTTCTTTTTTCTT
*
7400748 TTACTTTCTCTCTTTCTTTTT
1 TTTCTTTCT-TCTTTCTTTTT
7400769 CGTTATTTCA
Statistics
Matches: 40, Mismatches: 4, Indels: 6
0.80 0.08 0.12
Matches are distributed among these distances:
25 18 0.45
26 16 0.40
27 6 0.15
ACGTcount: A:0.01, C:0.22, G:0.03, T:0.74
Consensus pattern (24 bp):
TTTCTTTCTTCTTTCTTTTTTCTT
Found at i:7402621 original size:25 final size:26
Alignment explanation
Indices: 7402568--7402621 Score: 65
Period size: 27 Copynumber: 2.1 Consensus size: 26
7402558 TATTTAATTT
*
7402568 AATTTATATAAATTACATAATATATAA
1 AATTTATATAAATTA-ATAATATAAAA
* *
7402595 AATTTATATATATT-ATAATGTAAAA
1 AATTTATATAAATTAATAATATAAAA
7402620 AA
1 AA
7402622 CGGGTTAGGT
Statistics
Matches: 24, Mismatches: 3, Indels: 2
0.83 0.10 0.07
Matches are distributed among these distances:
25 11 0.46
27 13 0.54
ACGTcount: A:0.56, C:0.02, G:0.02, T:0.41
Consensus pattern (26 bp):
AATTTATATAAATTAATAATATAAAA
Found at i:7407281 original size:17 final size:18
Alignment explanation
Indices: 7407259--7407293 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
7407249 AATATAATAG
7407259 GCACAATTAAAT-TTTAA
1 GCACAATTAAATATTTAA
*
7407276 GCACAATTGAATATTTAA
1 GCACAATTAAATATTTAA
7407294 AACCACATTT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.46, C:0.11, G:0.09, T:0.34
Consensus pattern (18 bp):
GCACAATTAAATATTTAA
Found at i:7407671 original size:40 final size:41
Alignment explanation
Indices: 7407616--7407725 Score: 138
Period size: 40 Copynumber: 2.8 Consensus size: 41
7407606 ACCAGTTTGG
* * *
7407616 CACCCAGTGCCTCATCGGATAATTC-GAAGTAGTAAATTGA
1 CACCCAATGTCTCATCGGATAAATCTGAAGTAGTAAATTGA
*
7407656 CACCCAATGTCTCATCGAATAAATCTGAAGTAGTAAATTGA
1 CACCCAATGTCTCATCGGATAAATCTGAAGTAGTAAATTGA
* *
7407697 CACCC-A-GTCTCATCGGTTAAA-CCGAAGTA
1 CACCCAATGTCTCATCGGATAAATCTGAAGTA
7407726 AATTGGCAAC
Statistics
Matches: 62, Mismatches: 7, Indels: 4
0.85 0.10 0.05
Matches are distributed among these distances:
38 7 0.11
39 13 0.21
40 22 0.35
41 20 0.32
ACGTcount: A:0.35, C:0.24, G:0.17, T:0.25
Consensus pattern (41 bp):
CACCCAATGTCTCATCGGATAAATCTGAAGTAGTAAATTGA
Found at i:7420446 original size:22 final size:22
Alignment explanation
Indices: 7420393--7420451 Score: 64
Period size: 23 Copynumber: 2.6 Consensus size: 22
7420383 TTATTGTGAC
*
7420393 TTATTTATGAAAAAAAAATTCTA
1 TTATTTAT-AAAAAAAAATTATA
* * *
7420416 TAAAGTTATAACAAAAAATTATA
1 T-TATTTATAAAAAAAAATTATA
7420439 TTATTTATAAAAA
1 TTATTTATAAAAA
7420452 GTGTTATGCA
Statistics
Matches: 28, Mismatches: 7, Indels: 3
0.74 0.18 0.08
Matches are distributed among these distances:
22 9 0.32
23 14 0.50
24 5 0.18
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.37
Consensus pattern (22 bp):
TTATTTATAAAAAAAAATTATA
Found at i:7430020 original size:16 final size:17
Alignment explanation
Indices: 7429999--7430036 Score: 53
Period size: 16 Copynumber: 2.4 Consensus size: 17
7429989 AATATAAATT
*
7429999 AATATAATTATTATT-A
1 AATATAATTATAATTAA
7430015 AATAT-ATTATAATTAA
1 AATATAATTATAATTAA
7430031 AATATA
1 AATATA
7430037 TAATTTAATA
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 8 0.42
16 11 0.58
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (17 bp):
AATATAATTATAATTAA
Found at i:7430044 original size:14 final size:15
Alignment explanation
Indices: 7429995--7430046 Score: 56
Period size: 15 Copynumber: 3.6 Consensus size: 15
7429985 GTAAAATATA
7429995 AATT-AATATAATTAT
1 AATTAAATAT-ATTAT
*
7430010 TATTAAATATATTAT
1 AATTAAATATATTAT
7430025 AATTAAA-ATA-TAT
1 AATTAAATATATTAT
*
7430038 AATTTAATA
1 AATTAAATA
7430047 AAATTCTTAA
Statistics
Matches: 32, Mismatches: 3, Indels: 5
0.80 0.08 0.12
Matches are distributed among these distances:
13 9 0.28
14 4 0.12
15 14 0.44
16 5 0.16
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (15 bp):
AATTAAATATATTAT
Found at i:7430049 original size:59 final size:59
Alignment explanation
Indices: 7429986--7430185 Score: 151
Period size: 59 Copynumber: 3.3 Consensus size: 59
7429976 TATGATACTG
*
7429986 TAAAATATAAATTAATATAATTATTATTAAATATATTATAATTAAAATATATAATTTAA
1 TAAAATATAAATTAATATAATTATTATTAAATATATTATAATTAAAATATATGATTTAA
* * * * * * *
7430045 TAAAATTCTTAA-TAAT-TAA-TATTCTTATATGA-ATTTACTCAAATCATAATATATGATACT-
1 TAAAA-TATAAATTAATATAATTATTATTAAAT-ATA-TTA-T--AATTAAAATATATGAT-TTA
7430105 A
59 A
* * * *
7430106 TAAAAGATAATTTGAA-ATAATTAATATTAAATATATTTTAATTAAAATATATGATTTAA
1 TAAAATATAAATT-AATATAATTATTATTAAATATATTATAATTAAAATATATGATTTAA
* *
7430165 TAAAATTTAAAATAATTATAA
1 TAAAATATAAATTAA-TATAA
7430186 CTAATAAATT
Statistics
Matches: 103, Mismatches: 23, Indels: 29
0.66 0.15 0.19
Matches are distributed among these distances:
57 10 0.10
58 10 0.10
59 34 0.33
60 10 0.10
61 21 0.20
62 9 0.09
63 9 0.09
ACGTcount: A:0.52, C:0.03, G:0.03, T:0.42
Consensus pattern (59 bp):
TAAAATATAAATTAATATAATTATTATTAAATATATTATAATTAAAATATATGATTTAA
Found at i:7430241 original size:26 final size:28
Alignment explanation
Indices: 7430212--7430283 Score: 85
Period size: 28 Copynumber: 2.6 Consensus size: 28
7430202 TATGAATTTG
*
7430212 TATAATTTAA-AATAAT-TATTATTACA
1 TATAATTTAATAATAATATATAATTACA
*
7430238 TATAATTTAATAATAATATATAATTTCA
1 TATAATTTAATAATAATATATAATTACA
*
7430266 TAAAATTCTTAATAATAA
1 TATAA-T-TTAATAATAA
7430284 ATTTTCTTAT
Statistics
Matches: 39, Mismatches: 3, Indels: 4
0.85 0.07 0.09
Matches are distributed among these distances:
26 10 0.26
27 6 0.15
28 12 0.31
29 1 0.03
30 10 0.26
ACGTcount: A:0.51, C:0.04, G:0.00, T:0.44
Consensus pattern (28 bp):
TATAATTTAATAATAATATATAATTACA
Found at i:7430479 original size:22 final size:22
Alignment explanation
Indices: 7430453--7430495 Score: 86
Period size: 22 Copynumber: 2.0 Consensus size: 22
7430443 TAAGCTTGAA
7430453 TTTCATTAAATTACTTTCAAAT
1 TTTCATTAAATTACTTTCAAAT
7430475 TTTCATTAAATTACTTTCAAA
1 TTTCATTAAATTACTTTCAAA
7430496 GTTAAGGATC
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.37, C:0.14, G:0.00, T:0.49
Consensus pattern (22 bp):
TTTCATTAAATTACTTTCAAAT
Found at i:7433478 original size:48 final size:48
Alignment explanation
Indices: 7433422--7433518 Score: 176
Period size: 48 Copynumber: 2.0 Consensus size: 48
7433412 AAAACAGAGA
*
7433422 GTTGGGAAGGGAAGCCGGACGTAATAGGTAATTTGAGATTTAGGAAGG
1 GTTGGGAAGGGAAGCCGGACGTAATAGGTAATCTGAGATTTAGGAAGG
*
7433470 GTTGGGAAGGGAAGCCGGACGTAATAGGTAATCTGGGATTTAGGAAGG
1 GTTGGGAAGGGAAGCCGGACGTAATAGGTAATCTGAGATTTAGGAAGG
7433518 G
1 G
7433519 AATAGAAAAG
Statistics
Matches: 47, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
48 47 1.00
ACGTcount: A:0.30, C:0.07, G:0.41, T:0.22
Consensus pattern (48 bp):
GTTGGGAAGGGAAGCCGGACGTAATAGGTAATCTGAGATTTAGGAAGG
Found at i:7438902 original size:2 final size:2
Alignment explanation
Indices: 7438895--7438919 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7438885 GTCTGATGCA
7438895 TC TC TC TC TC TC TC TC TC TC TC TC T
1 TC TC TC TC TC TC TC TC TC TC TC TC T
7438920 TTATCTCCCT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
TC
Found at i:7445269 original size:18 final size:18
Alignment explanation
Indices: 7445246--7445288 Score: 59
Period size: 18 Copynumber: 2.4 Consensus size: 18
7445236 TATCAGGTGC
* *
7445246 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTACAT
7445264 GTATCCTAACCCTTACAT
1 GTATCCTAACCCTTACAT
*
7445282 GTTTCCT
1 GTATCCT
7445289 TTTTCCAGTC
Statistics
Matches: 22, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 22 1.00
ACGTcount: A:0.21, C:0.30, G:0.09, T:0.40
Consensus pattern (18 bp):
GTATCCTAACCCTTACAT
Found at i:7448970 original size:125 final size:125
Alignment explanation
Indices: 7448795--7449301 Score: 594
Period size: 125 Copynumber: 4.1 Consensus size: 125
7448785 TAAGGCCAAG
*
7448795 CAAGAACTACTGTAGAAAAA-A-AGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* ** * * * *
7448858 ATCTTGGTTAAAACGTTTTTGACACTATTTTTTCAAAACCGTCTTATCAAAATTACTTTTT
66 ATCCTACTTAAAGCGTTTTTGACACTA-TTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* *
7448919 CAAGAACTATTGTAGAAAAAGAGCGTCCACATGAGAGC-TTTTTCAGTAATTTTGCTGACAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* *
7448983 ATCCTACTTAAAGCATTTTTGACACTATTTTTCAGAACTGTCTTCTCAAAATTATTTTTT
66 ATCCTACTTAAAGCGTTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * * * *
7449043 CAGGAACTACTGTAGAAAAAGAGCATTCACGTGTGAGCTTTTTTCAATAACTTTGCTGACAGTGC
1 CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
* * * *
7449108 ATCCTACTTGAAGCGTTTTTGACATTATTTTTTTAGAATCGTCTTCTCAAAATTATTTTTT
66 ATCCTACTTAAAGCGTTTTTGACACTA-TTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
* * * ** * * *
7449169 -TAGAAACTACCGTAGAAAAATAGCGTTTACGT-AGGAGATTTTTTCAGTACTTTTGCTGACATT
1 CAAG-AACTACTGTAGAAAAAGAGCGTCCACGTGA-GAGCTTTTTTCAGTAATTTTGCTGACAGT
** * * * * * *
7449232 ATATCCTGCTTGAATCGTTTTTGTCACTATTTTTCAGAACCATTTTCTCAAAATTATTTTTT
64 GCATCCTACTTAAAGCGTTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
7449294 CAA-AACTA
1 CAAGAACTA
7449302 TTTTATCAAA
Statistics
Matches: 327, Mismatches: 49, Indels: 14
0.84 0.13 0.04
Matches are distributed among these distances:
124 85 0.26
125 127 0.39
126 115 0.35
ACGTcount: A:0.30, C:0.17, G:0.14, T:0.39
Consensus pattern (125 bp):
CAAGAACTACTGTAGAAAAAGAGCGTCCACGTGAGAGCTTTTTTCAGTAATTTTGCTGACAGTGC
ATCCTACTTAAAGCGTTTTTGACACTATTTTTCAGAACCGTCTTCTCAAAATTATTTTTT
Found at i:7449295 original size:28 final size:28
Alignment explanation
Indices: 7449261--7449326 Score: 105
Period size: 28 Copynumber: 2.4 Consensus size: 28
7449251 TTTGTCACTA
*
7449261 TTTTTCAGAACCATTTTCTCAAAATTAT
1 TTTTTCAGAACCATTTTATCAAAATTAT
* *
7449289 TTTTTCAAAACTATTTTATCAAAATTAT
1 TTTTTCAGAACCATTTTATCAAAATTAT
7449317 TTTTTCAGAA
1 TTTTTCAGAA
7449327 ACTACTGTAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 34 1.00
ACGTcount: A:0.35, C:0.14, G:0.03, T:0.48
Consensus pattern (28 bp):
TTTTTCAGAACCATTTTATCAAAATTAT
Found at i:7449296 original size:14 final size:14
Alignment explanation
Indices: 7449273--7449323 Score: 75
Period size: 14 Copynumber: 3.6 Consensus size: 14
7449263 TTTCAGAACC
*
7449273 ATTTTCTCAAAATT
1 ATTTTTTCAAAATT
*
7449287 ATTTTTTCAAAACT
1 ATTTTTTCAAAATT
*
7449301 ATTTTATCAAAATT
1 ATTTTTTCAAAATT
7449315 ATTTTTTCA
1 ATTTTTTCA
7449324 GAAACTACTG
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
14 32 1.00
ACGTcount: A:0.35, C:0.12, G:0.00, T:0.53
Consensus pattern (14 bp):
ATTTTTTCAAAATT
Found at i:7451653 original size:20 final size:22
Alignment explanation
Indices: 7451615--7451662 Score: 66
Period size: 20 Copynumber: 2.3 Consensus size: 22
7451605 ACTCTAAGCA
7451615 CTAAA-TCTACAATCTCAAACC
1 CTAAACTCTACAATCTCAAACC
*
7451636 CTAAACTCTA-AA-CTCAAATC
1 CTAAACTCTACAATCTCAAACC
7451656 CTAAACT
1 CTAAACT
7451663 TGTAGCCCAA
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
20 14 0.56
21 7 0.28
22 4 0.16
ACGTcount: A:0.44, C:0.31, G:0.00, T:0.25
Consensus pattern (22 bp):
CTAAACTCTACAATCTCAAACC
Found at i:7451720 original size:7 final size:7
Alignment explanation
Indices: 7451710--7451748 Score: 51
Period size: 7 Copynumber: 5.4 Consensus size: 7
7451700 GTAACTCATA
7451710 ACCCTGG
1 ACCCTGG
7451717 ACCCTGG
1 ACCCTGG
7451724 ACCCTGG
1 ACCCTGG
* *
7451731 ACTCGGG
1 ACCCTGG
7451738 ACCCTTGG
1 ACCC-TGG
7451746 ACC
1 ACC
7451749 TCAAACCCAA
Statistics
Matches: 27, Mismatches: 4, Indels: 1
0.84 0.12 0.03
Matches are distributed among these distances:
7 22 0.81
8 5 0.19
ACGTcount: A:0.15, C:0.41, G:0.28, T:0.15
Consensus pattern (7 bp):
ACCCTGG
Found at i:7458402 original size:21 final size:23
Alignment explanation
Indices: 7458378--7458426 Score: 61
Period size: 21 Copynumber: 2.3 Consensus size: 23
7458368 ACTTGATTTT
7458378 ATAATTTTATATT-A-ATTAAAA
1 ATAATTTTATATTAATATTAAAA
7458399 ATAA--TTATATTAATATTAAAA
1 ATAATTTTATATTAATATTAAAA
*
7458420 AAAATTT
1 ATAATTT
7458427 CCTCCCCCCA
Statistics
Matches: 23, Mismatches: 1, Indels: 6
0.77 0.03 0.20
Matches are distributed among these distances:
19 7 0.30
20 1 0.04
21 14 0.61
23 1 0.04
ACGTcount: A:0.55, C:0.00, G:0.00, T:0.45
Consensus pattern (23 bp):
ATAATTTTATATTAATATTAAAA
Found at i:7460348 original size:125 final size:124
Alignment explanation
Indices: 7460084--7460364 Score: 427
Period size: 124 Copynumber: 2.3 Consensus size: 124
7460074 ATTTATTAAG
* * * * *
7460084 GAAATTGCTCCCACGTGGACGCGTTTTTGATACAGTAGATCCTGAAAAAATAATTTCAAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAATAGATCCTAAAAAAATAATTTCAAGTTGAC
* * *
7460149 GTTTCTGAGCAAATAGTATAAAAACGCTTCAAGTAGGATGCTTTATCAGAAGAATTTCT
66 GTTTCTGAACAAATAGTATAAAAACACTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
* * * * *
7460208 GAAATCGCTCTCACGTGAACACGCTTTTGCTACAATAGGTCCTAAAAAAATAATTTCGAGTTGAC
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAATAGATCCTAAAAAAATAATTTCAAGTTGAC
*
7460273 GTTTCTGAACAAATAGTATAAAAAACACTTCAAGCAGGATGCTTTATCAGAAGAATTTTT
66 GTTTCTGAACAAATAGTAT-AAAAACACTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
7460333 GAAATCGCTCCCACGTGGACGCGCTTTTGCTA
1 GAAATCGCTCCCACGTGGACGCGCTTTTGCTA
7460365 GAGTAGCATG
Statistics
Matches: 139, Mismatches: 17, Indels: 1
0.89 0.11 0.01
Matches are distributed among these distances:
124 73 0.53
125 66 0.47
ACGTcount: A:0.33, C:0.19, G:0.19, T:0.30
Consensus pattern (124 bp):
GAAATCGCTCCCACGTGGACGCGCTTTTGCTACAATAGATCCTAAAAAAATAATTTCAAGTTGAC
GTTTCTGAACAAATAGTATAAAAACACTTCAAGCAGGATGCTTTATCAGAAGAATTTCT
Found at i:7461350 original size:14 final size:14
Alignment explanation
Indices: 7461331--7461360 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7461321 GATGATGTGT
7461331 TGGATCATAAACCA
1 TGGATCATAAACCA
*
7461345 TGGATCCTAAACCA
1 TGGATCATAAACCA
7461359 TG
1 TG
7461361 ACATGTATTC
Statistics
Matches: 15, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.37, C:0.23, G:0.17, T:0.23
Consensus pattern (14 bp):
TGGATCATAAACCA
Found at i:7465343 original size:101 final size:101
Alignment explanation
Indices: 7465214--7465572 Score: 455
Period size: 100 Copynumber: 3.6 Consensus size: 101
7465204 TTTGTTAGTA
* * * *
7465214 ATTTGTTTAGTTTAATGTTTATTATGATTTGTTATAAATATAAATTTTTATGTTGTTTTT-AATT
1 ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATGAATGTAAATTTTTTTGTT-TTTTTAAATT
*
7465278 TATTTTAAAGTCATTTTGTTAGTAATTATTATAAATT
65 TATTTTAAAGTTATTTTGTTAGTAATTATTATAAATT
* * * *
7465315 ATTTGTTTAGTTTAAAGTTTTTTGTGATTTGTTATGAATGTAATTTTTTTTTGTTTTTTTAAAGT
1 ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATGAATGTAA-ATTTTTTTGTTTTTTTAAATT
* ** * *
7465380 TATTTT---GTTA-GTAATTAATTATTAGGTTATAAATT
65 TATTTTAAAGTTATTTTGTTAGTAATTA--TTATAAATT
*
7465415 ATTTGTTTAGCTTAATGTTTATTGTGATTTGTTATGAATGT-AATTTTTGTTGTTTTTTTTAAAA
1 ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATGAATGTAAATTTTT-TTG-TTTTTTT-AAA
7465479 TTTATTTTAAAGTTATTTTGTTAGTAATTATTATAAATT
63 TTTATTTTAAAGTTATTTTGTTAGTAATTATTATAAATT
*
7465518 ATTTGTTTAGTTTAATGCTTATTGTGATTTGTTATGAATGT--ATTTTTTTGTTTTT
1 ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATGAATGTAAATTTTTTTGTTTTT
7465573 GATTTATTTG
Statistics
Matches: 221, Mismatches: 26, Indels: 23
0.82 0.10 0.09
Matches are distributed among these distances:
98 14 0.06
99 7 0.03
100 59 0.27
101 56 0.25
102 24 0.11
103 48 0.22
104 4 0.02
105 9 0.04
ACGTcount: A:0.26, C:0.01, G:0.13, T:0.60
Consensus pattern (101 bp):
ATTTGTTTAGTTTAATGTTTATTGTGATTTGTTATGAATGTAAATTTTTTTGTTTTTTTAAATTT
ATTTTAAAGTTATTTTGTTAGTAATTATTATAAATT
Found at i:7465832 original size:14 final size:14
Alignment explanation
Indices: 7465797--7465874 Score: 52
Period size: 14 Copynumber: 5.5 Consensus size: 14
7465787 TGAGATATTT
7465797 TTTATTGTAATTATA
1 TTTATTGT-ATTATA
7465812 TTATTATTGTATTATA
1 -T-TTATTGTATTATA
* *
7465828 TTTATCGTA-T-TG
1 TTTATTGTATTATA
*
7465840 TTTATTGTATAATA
1 TTTATTGTATTATA
* * *
7465854 TTAATTTTTTTATA
1 TTTATTGTATTATA
*
7465868 ATTATTG
1 TTTATTG
7465875 AAAACGAATT
Statistics
Matches: 47, Mismatches: 12, Indels: 8
0.70 0.18 0.12
Matches are distributed among these distances:
12 9 0.19
13 1 0.02
14 22 0.47
15 1 0.02
16 7 0.15
17 7 0.15
ACGTcount: A:0.29, C:0.01, G:0.08, T:0.62
Consensus pattern (14 bp):
TTTATTGTATTATA
Found at i:7465832 original size:17 final size:18
Alignment explanation
Indices: 7465791--7465832 Score: 61
Period size: 17 Copynumber: 2.4 Consensus size: 18
7465781 AATTTATGAG
*
7465791 ATATTTTTTATTGTAATT
1 ATATTTATTATTGTAATT
7465809 ATA-TTATTATTGT-ATT
1 ATATTTATTATTGTAATT
7465825 ATATTTAT
1 ATATTTAT
7465833 CGTATTGTTT
Statistics
Matches: 22, Mismatches: 1, Indels: 3
0.85 0.04 0.12
Matches are distributed among these distances:
16 6 0.27
17 13 0.59
18 3 0.14
ACGTcount: A:0.31, C:0.00, G:0.05, T:0.64
Consensus pattern (18 bp):
ATATTTATTATTGTAATT
Found at i:7469778 original size:8 final size:8
Alignment explanation
Indices: 7469765--7469792 Score: 56
Period size: 8 Copynumber: 3.5 Consensus size: 8
7469755 GTCTCAAATA
7469765 AAAACATT
1 AAAACATT
7469773 AAAACATT
1 AAAACATT
7469781 AAAACATT
1 AAAACATT
7469789 AAAA
1 AAAA
7469793 TATATATTGA
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:0.68, C:0.11, G:0.00, T:0.21
Consensus pattern (8 bp):
AAAACATT
Found at i:7471721 original size:24 final size:24
Alignment explanation
Indices: 7471689--7471741 Score: 88
Period size: 24 Copynumber: 2.2 Consensus size: 24
7471679 AAAAAAATTC
*
7471689 TTTTGCTACTCTTGAATCTTAAAA
1 TTTTACTACTCTTGAATCTTAAAA
*
7471713 TTTTACTACTTTTGAATCTTAAAA
1 TTTTACTACTCTTGAATCTTAAAA
7471737 TTTTA
1 TTTTA
7471742 TCTGCACAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
24 27 1.00
ACGTcount: A:0.30, C:0.13, G:0.06, T:0.51
Consensus pattern (24 bp):
TTTTACTACTCTTGAATCTTAAAA
Found at i:7472377 original size:17 final size:17
Alignment explanation
Indices: 7472336--7472380 Score: 58
Period size: 17 Copynumber: 2.8 Consensus size: 17
7472326 CAAAAAATCC
7472336 CAAAAATA-TTTTATTT
1 CAAAAATATTTTTATTT
**
7472352 -AGCAATATTTTTATTT
1 CAAAAATATTTTTATTT
7472368 CAAAAATATTTTT
1 CAAAAATATTTTT
7472381 TATCCCCAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
15 5 0.22
16 8 0.35
17 10 0.43
ACGTcount: A:0.40, C:0.07, G:0.02, T:0.51
Consensus pattern (17 bp):
CAAAAATATTTTTATTT
Found at i:7472616 original size:16 final size:16
Alignment explanation
Indices: 7472595--7472627 Score: 57
Period size: 16 Copynumber: 2.1 Consensus size: 16
7472585 TTCGCTGTAT
7472595 TGGAATAGAGGCATAA
1 TGGAATAGAGGCATAA
*
7472611 TGGAATAGAGGCGTAA
1 TGGAATAGAGGCATAA
7472627 T
1 T
7472628 AGCAATTCAA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.39, C:0.06, G:0.33, T:0.21
Consensus pattern (16 bp):
TGGAATAGAGGCATAA
Found at i:7472942 original size:95 final size:95
Alignment explanation
Indices: 7472836--7473012 Score: 345
Period size: 95 Copynumber: 1.9 Consensus size: 95
7472826 TAATTTAATC
*
7472836 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTGATAAAATTCTTAA
1 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTGATAAAATTATTAA
7472901 TAATCAATATTCTTATAATTATTATTAAAT
66 TAATCAATATTCTTATAATTATTATTAAAT
7472931 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTGATAAAATTATTAA
1 ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTGATAAAATTATTAA
7472996 TAATCAATATTCTTATA
66 TAATCAATATTCTTATA
7473013 TGAATTTACT
Statistics
Matches: 81, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
95 81 1.00
ACGTcount: A:0.47, C:0.04, G:0.01, T:0.48
Consensus pattern (95 bp):
ATATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTGATAAAATTATTAA
TAATCAATATTCTTATAATTATTATTAAAT
Found at i:7472945 original size:26 final size:26
Alignment explanation
Indices: 7472915--7472965 Score: 102
Period size: 26 Copynumber: 2.0 Consensus size: 26
7472905 CAATATTCTT
7472915 ATAATTATTATTAAATATATTTTAAC
1 ATAATTATTATTAAATATATTTTAAC
7472941 ATAATTATTATTAAATATATTTTAA
1 ATAATTATTATTAAATATATTTTAA
7472966 TTAAAATATA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 25 1.00
ACGTcount: A:0.47, C:0.02, G:0.00, T:0.51
Consensus pattern (26 bp):
ATAATTATTATTAAATATATTTTAAC
Found at i:7473093 original size:18 final size:17
Alignment explanation
Indices: 7473072--7473106 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
7473062 TTATTATTAA
*
7473072 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
7473090 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
7473107 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:7473213 original size:18 final size:17
Alignment explanation
Indices: 7473190--7473226 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
7473180 AATTATTATT
7473190 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
7473206 AAATATATGATTTAATA
1 AAATATATGATTTAATA
7473223 AAAT
1 AAAT
7473227 TCTTAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:7473333 original size:18 final size:17
Alignment explanation
Indices: 7473310--7473346 Score: 51
Period size: 16 Copynumber: 2.2 Consensus size: 17
7473300 AATTATTATT
7473310 AAATATAT--TTTAATTA
1 AAATATATGATTTAA-TA
7473326 AAATATATGATTTAATA
1 AAATATATGATTTAATA
7473343 AAAT
1 AAAT
7473347 TTAAAATAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 3
0.86 0.00 0.14
Matches are distributed among these distances:
16 8 0.42
17 6 0.32
18 5 0.26
ACGTcount: A:0.54, C:0.00, G:0.03, T:0.43
Consensus pattern (17 bp):
AAATATATGATTTAATA
Found at i:7473356 original size:120 final size:121
Alignment explanation
Indices: 7472927--7473347 Score: 748
Period size: 120 Copynumber: 3.5 Consensus size: 121
7472917 AATTATTATT
* *
7472927 AAATAT-ATTTTAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTGATAAAATT
1 AAATATAATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
*
7472991 ATTAATAATCAATATTCTTATATGAATTTACTAAAATC---ATATATGATACTATA
66 CTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATA
7473044 AAATATAATTT-AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
1 AAATATAATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
7473108 CTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATA
66 CTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATA
*
7473164 AAATATAATTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AAATATAATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
7473228 CTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATA
66 CTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATA
*
7473284 AAATATAATTTGAA-ATAATTATTATTAAATATATTTTAATTAAAATATATGATTTAATAAAATT
1 AAATATAATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
7473348 TAAAATAATT
Statistics
Matches: 296, Mismatches: 3, Indels: 7
0.97 0.01 0.02
Matches are distributed among these distances:
117 95 0.32
118 4 0.01
120 195 0.66
121 2 0.01
ACGTcount: A:0.49, C:0.05, G:0.03, T:0.44
Consensus pattern (121 bp):
AAATATAATTTGAACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATT
CTTAATAATCAATATTCTTATATGAATTTACTAAAATCATAATATATGATACTATA
Found at i:7473403 original size:101 final size:93
Alignment explanation
Indices: 7473287--7473568 Score: 349
Period size: 91 Copynumber: 3.0 Consensus size: 93
7473277 TACTATAAAA
* * *
7473287 TATAATTTGAAATAATTATTATTAAATATATTTTAATTAA-AATATATGATTTAATAAAATTTAA
1 TATAATTTAAAATAATTATTATTAAATATAATTTAA-TAATAATATATGATTTCATAAAATTT--
* *
7473351 AATAATTATTACTAATAAATTTTCTTATATGAATTTG
63 --T--CT-TGA-TAATAAATTTTCTTATATGAATTTG
7473388 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATGATTTCATAAAA--TTCT
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATGATTTCATAAAATTTTCT
7473451 TGATAATAAATTTTCTTATATGAATTTG
66 TGATAATAAATTTTCTTATATGAATTTG
* * * *
7473479 TGTAATTTAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCATAAAA--TTCT
1 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATGATTTCATAAAATTTTCT
* *
7473542 TAATAATAAATATTCTTATATGAATTT
66 TGATAATAAATTTTCTTATATGAATTT
7473569 ACTAAAATCA
Statistics
Matches: 169, Mismatches: 11, Indels: 12
0.88 0.06 0.06
Matches are distributed among these distances:
91 109 0.64
92 2 0.01
93 1 0.01
95 1 0.01
99 1 0.01
100 3 0.02
101 52 0.31
ACGTcount: A:0.46, C:0.03, G:0.04, T:0.47
Consensus pattern (93 bp):
TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATGATTTCATAAAATTTTCT
TGATAATAAATTTTCTTATATGAATTTG
Found at i:7473434 original size:54 final size:55
Alignment explanation
Indices: 7473285--7473436 Score: 171
Period size: 54 Copynumber: 2.9 Consensus size: 55
7473275 GATACTATAA
* *
7473285 AATATAATTTGAAATAATTATTATTAAATATATTTTAATTAA-AATATATG-ATTT
1 AATATAATTTAAAATAATTATTATTAAATATAATTTAA-TAATAATATATGAATTT
* * *
7473339 AATAAAATTTAAAATAATTATTACT-AATA-AATTT--T-CT--TATATGAATTT
1 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATGAATTT
*
7473387 -GTATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATGA
1 AATATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATGA
7473437 TTTCATAAAA
Statistics
Matches: 80, Mismatches: 9, Indels: 18
0.75 0.08 0.17
Matches are distributed among these distances:
47 27 0.34
48 8 0.10
49 6 0.08
51 1 0.01
52 5 0.06
53 4 0.05
54 29 0.36
ACGTcount: A:0.49, C:0.01, G:0.03, T:0.46
Consensus pattern (55 bp):
AATATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATATATGAATTT
Found at i:7473446 original size:47 final size:46
Alignment explanation
Indices: 7473395--7473538 Score: 111
Period size: 47 Copynumber: 3.1 Consensus size: 46
7473385 TTGTATAATT
7473395 TAAAATAATTATTATTAAATATAATTTAATAATAATATATGATTTCA
1 TAAAATAATTA-TATTAAATATAATTTAATAATAATATATGATTTCA
** * * * * *
7473442 TAAAATTCTTGATAATAAAT-T--TTCTTAT-ATGAATTTGTGTAATT--
1 TAAAATAATT-ATATTAAATATAATT-TAATAAT-AATATATG-ATTTCA
* *
7473486 TAAAATAATTAATATTAAATATAATTTAATAATGATATATAATTTCA
1 TAAAATAATT-ATATTAAATATAATTTAATAATAATATATGATTTCA
7473533 TAAAAT
1 TAAAAT
7473539 TCTTAATAAT
Statistics
Matches: 70, Mismatches: 17, Indels: 20
0.65 0.16 0.19
Matches are distributed among these distances:
44 20 0.29
45 13 0.19
46 11 0.16
47 25 0.36
48 1 0.01
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (46 bp):
TAAAATAATTATATTAAATATAATTTAATAATAATATATGATTTCA
Found at i:7473464 original size:91 final size:91
Alignment explanation
Indices: 7473354--7473568 Score: 358
Period size: 91 Copynumber: 2.4 Consensus size: 91
7473344 AATTTAAAAT
* * *
7473354 AATTATTACTAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTATTATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAATATTAAATATAA
*
7473419 TTTAATAATAATATATGATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
* *
7473445 AATTCTTGATAATAAATTTTCTTATATGAATTTGTGTAATTTAAAATAATTAATATTAAATATAA
1 AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAATATTAAATATAA
*
7473510 TTTAATAATGATATATAATTTCATAA
66 TTTAATAATAATATATAATTTCATAA
*
7473536 AATTCTTAATAATAAATATTCTTATATGAATTT
1 AATTCTTAATAATAAATTTTCTTATATGAATTT
7473569 ACTAAAATCA
Statistics
Matches: 115, Mismatches: 9, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
91 115 1.00
ACGTcount: A:0.45, C:0.04, G:0.04, T:0.47
Consensus pattern (91 bp):
AATTCTTAATAATAAATTTTCTTATATGAATTTGTATAATTTAAAATAATTAATATTAAATATAA
TTTAATAATAATATATAATTTCATAA
Found at i:7473529 original size:44 final size:43
Alignment explanation
Indices: 7473388--7473530 Score: 110
Period size: 44 Copynumber: 3.2 Consensus size: 43
7473378 TATGAATTTG
*
7473388 TATAATTTAAAATAATTATTATTAAATATAATTTAATAATAATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
* ** * * * * *
7473432 TATGATTTCATAAAATTCTTGATAATAAAT-T-TTCTTATATGAATTTG
1 TAT-AATT--TAAAATAATTAATATTAAATATAAT-TTA-AT-AATATA
*
7473479 TGTAATTTAAAATAATTAATATTAAATATAATTTAATAATGATA
1 TATAATTTAAAATAATTAATATTAAATATAATTTAATAAT-ATA
7473523 TATAATTT
1 TATAATTT
7473531 CATAAAATTC
Statistics
Matches: 71, Mismatches: 19, Indels: 18
0.66 0.18 0.17
Matches are distributed among these distances:
43 3 0.04
44 29 0.41
45 8 0.11
46 8 0.11
47 20 0.28
48 3 0.04
ACGTcount: A:0.47, C:0.02, G:0.04, T:0.47
Consensus pattern (43 bp):
TATAATTTAAAATAATTAATATTAAATATAATTTAATAATATA
Found at i:7473545 original size:47 final size:46
Alignment explanation
Indices: 7473410--7473554 Score: 129
Period size: 47 Copynumber: 3.2 Consensus size: 46
7473400 TAATTATTAT
* *
7473410 TAAATATAATTTAATAATAATATATGATTTCATAAAATTCTTGATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTAATAA
* * * * ** *
7473457 TAAAT-T-TTCTTATATGAATTTGTGTAA-TT--TAAAATAATTAATAT
1 TAAATATAAT-TTA-AT-AATATATATAATTTCATAAAATTCTTAATAA
7473501 TAAATATAATTTAATAATGATATATAATTTCATAAAATTCTTAATAA
1 TAAATATAATTTAATAAT-ATATATAATTTCATAAAATTCTTAATAA
7473548 TAAATAT
1 TAAATAT
7473555 TCTTATATGA
Statistics
Matches: 73, Mismatches: 16, Indels: 18
0.68 0.15 0.17
Matches are distributed among these distances:
43 3 0.04
44 23 0.32
45 7 0.10
46 7 0.10
47 30 0.41
48 3 0.04
ACGTcount: A:0.48, C:0.03, G:0.04, T:0.45
Consensus pattern (46 bp):
TAAATATAATTTAATAATATATATAATTTCATAAAATTCTTAATAA
Found at i:7476831 original size:100 final size:100
Alignment explanation
Indices: 7476708--7476935 Score: 456
Period size: 100 Copynumber: 2.3 Consensus size: 100
7476698 ACATTAACAT
7476708 TAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAATTTAACATTAACAAACCACATTTTT
1 TAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAATTTAACATTAACAAACCACATTTTT
7476773 CTTTAAACAATTTTTAAAAGCACTTTCAATCATAA
66 CTTTAAACAATTTTTAAAAGCACTTTCAATCATAA
7476808 TAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAATTTAACATTAACAAACCACATTTTT
1 TAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAATTTAACATTAACAAACCACATTTTT
7476873 CTTTAAACAATTTTTAAAAGCACTTTCAATCATAA
66 CTTTAAACAATTTTTAAAAGCACTTTCAATCATAA
7476908 TAACAATGAATATTTGTTTTTTAATCAA
1 TAACAATGAATATTTGTTTTTTAATCAA
7476936 GTTGTTTACT
Statistics
Matches: 128, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
100 128 1.00
ACGTcount: A:0.42, C:0.14, G:0.04, T:0.40
Consensus pattern (100 bp):
TAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAATTTAACATTAACAAACCACATTTTT
CTTTAAACAATTTTTAAAAGCACTTTCAATCATAA
Found at i:7476861 original size:48 final size:48
Alignment explanation
Indices: 7476701--7476861 Score: 159
Period size: 48 Copynumber: 3.3 Consensus size: 48
7476691 AACTTTAACA
7476701 TTAACATTAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAAT
1 TTAACATTAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAAT
*** * * * *
7476749 TTAACATTAACAAACCACATTT-TTCTTT-A--AACAATTTTTAAAAGCACT
1 TTAACATTAACAATGAATATTTGTTTTTTAATCAACAA-TGTTACAA--A-T
7476797 TTCAATCATAATAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAAT
1 TT-AA-CAT--TAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAAT
7476849 TTAACATTAACAA
1 TTAACATTAACAA
7476862 ACCACATTTT
Statistics
Matches: 87, Mismatches: 14, Indels: 24
0.70 0.11 0.19
Matches are distributed among these distances:
44 5 0.06
45 6 0.07
46 1 0.01
47 6 0.07
48 27 0.31
49 2 0.02
50 6 0.07
51 2 0.02
52 14 0.16
53 6 0.07
54 1 0.01
55 6 0.07
56 5 0.06
ACGTcount: A:0.43, C:0.14, G:0.04, T:0.39
Consensus pattern (48 bp):
TTAACATTAACAATGAATATTTGTTTTTTAATCAACAATGTTACAAAT
Found at i:7477090 original size:24 final size:26
Alignment explanation
Indices: 7477038--7477087 Score: 75
Period size: 26 Copynumber: 1.9 Consensus size: 26
7477028 TATATGTAAT
7477038 ATTATTAAAATAATATTTTTAATTTTA
1 ATTATTAAAATAATATTTTTAA-TTTA
*
7477065 ATTATTTAAA-AATATTTTTAATT
1 ATTATTAAAATAATATTTTTAATT
7477088 AATGCGTTGT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 2 0.09
26 11 0.50
27 9 0.41
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (26 bp):
ATTATTAAAATAATATTTTTAATTTA
Found at i:7488515 original size:40 final size:40
Alignment explanation
Indices: 7488458--7488540 Score: 114
Period size: 40 Copynumber: 2.1 Consensus size: 40
7488448 ATTCCACAGC
* *
7488458 ACTTCATTTATTCAGTATACATCCTCTGGTGT-CTAGTCAA
1 ACTTCATTTATTCAGTATACAACCTCTGGT-TCCAAGTCAA
* *
7488498 ACTTTATTTATTCAGTATACAACTTCTGGTTCCAAGTCAA
1 ACTTCATTTATTCAGTATACAACCTCTGGTTCCAAGTCAA
7488538 ACT
1 ACT
7488541 CGTGCTGAAA
Statistics
Matches: 38, Mismatches: 4, Indels: 2
0.86 0.09 0.05
Matches are distributed among these distances:
39 1 0.03
40 37 0.97
ACGTcount: A:0.28, C:0.22, G:0.11, T:0.40
Consensus pattern (40 bp):
ACTTCATTTATTCAGTATACAACCTCTGGTTCCAAGTCAA
Found at i:7496111 original size:65 final size:65
Alignment explanation
Indices: 7496001--7496130 Score: 215
Period size: 65 Copynumber: 2.0 Consensus size: 65
7495991 AAACATTATA
* *
7496001 TCAAACATCTCCCATACAAAAATTCAGCGCTAGAAAAGTATCCCTATGTACATAGAATTAAACAG
1 TCAAACATCTCCCATACAAAAATTCAGCGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
* * *
7496066 TCAAACGTCTCCCATACTAAAATTCAGTGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
1 TCAAACATCTCCCATACAAAAATTCAGCGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
7496131 CTACCAACAG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
65 60 1.00
ACGTcount: A:0.42, C:0.24, G:0.12, T:0.23
Consensus pattern (65 bp):
TCAAACATCTCCCATACAAAAATTCAGCGCTAGAAAAGCACCCCTATGTACATAGAATTAAACAG
Found at i:7497043 original size:35 final size:35
Alignment explanation
Indices: 7496997--7497068 Score: 144
Period size: 35 Copynumber: 2.1 Consensus size: 35
7496987 TGGGCGGTCA
7496997 AGTTTGGTTGATGACGAGTTGTAACATTTTTATCC
1 AGTTTGGTTGATGACGAGTTGTAACATTTTTATCC
7497032 AGTTTGGTTGATGACGAGTTGTAACATTTTTATCC
1 AGTTTGGTTGATGACGAGTTGTAACATTTTTATCC
7497067 AG
1 AG
7497069 GCTTTGGCAA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
35 37 1.00
ACGTcount: A:0.24, C:0.11, G:0.24, T:0.42
Consensus pattern (35 bp):
AGTTTGGTTGATGACGAGTTGTAACATTTTTATCC
Found at i:7502797 original size:6 final size:6
Alignment explanation
Indices: 7502782--7502811 Score: 51
Period size: 6 Copynumber: 4.8 Consensus size: 6
7502772 TAATTATACA
7502782 TATATAT TATATT TATATT TATATT TATAT
1 TATAT-T TATATT TATATT TATATT TATAT
7502812 CACTAATTTA
Statistics
Matches: 23, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
6 18 0.78
7 5 0.22
ACGTcount: A:0.37, C:0.00, G:0.00, T:0.63
Consensus pattern (6 bp):
TATATT
Found at i:7507554 original size:23 final size:23
Alignment explanation
Indices: 7507505--7507554 Score: 66
Period size: 23 Copynumber: 2.2 Consensus size: 23
7507495 ATTAATTATT
* *
7507505 TTTATTAAAATAATATTTAATAT
1 TTTATTAAAATAATATTGAATAA
7507528 TTTATTAAAATAATA-TGAATTAA
1 TTTATTAAAATAATATTGAA-TAA
7507551 TTTA
1 TTTA
7507555 AAATATTTAA
Statistics
Matches: 24, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
22 3 0.12
23 21 0.88
ACGTcount: A:0.48, C:0.00, G:0.02, T:0.50
Consensus pattern (23 bp):
TTTATTAAAATAATATTGAATAA
Found at i:7507689 original size:15 final size:16
Alignment explanation
Indices: 7507651--7507716 Score: 64
Period size: 16 Copynumber: 4.1 Consensus size: 16
7507641 TGAATAATAT
7507651 TAAATA-TATTTTTAAA
1 TAAATATTA-TTTTAAA
7507667 TAAATATTATTTTAAA
1 TAAATATTATTTTAAA
* * *
7507683 T-AATATTGTAATTAAT
1 TAAATATTAT-TTTAAA
*
7507699 TAAATTTTATTTTAAA
1 TAAATATTATTTTAAA
7507715 TA
1 TA
7507717 TTAATTTTTT
Statistics
Matches: 40, Mismatches: 7, Indels: 6
0.75 0.13 0.11
Matches are distributed among these distances:
15 7 0.17
16 25 0.62
17 8 0.20
ACGTcount: A:0.47, C:0.00, G:0.02, T:0.52
Consensus pattern (16 bp):
TAAATATTATTTTAAA
Found at i:7509426 original size:22 final size:22
Alignment explanation
Indices: 7509398--7509449 Score: 70
Period size: 21 Copynumber: 2.4 Consensus size: 22
7509388 TCGTTACACA
7509398 AATTTTTGAAGAAAACTTAGTT
1 AATTTTTGAAGAAAACTTAGTT
***
7509420 AATTTTTG-ATTTAACTTAGTT
1 AATTTTTGAAGAAAACTTAGTT
7509441 AATTTTTGA
1 AATTTTTGA
7509450 TTTATTCGTT
Statistics
Matches: 26, Mismatches: 3, Indels: 2
0.84 0.10 0.06
Matches are distributed among these distances:
21 18 0.69
22 8 0.31
ACGTcount: A:0.35, C:0.04, G:0.12, T:0.50
Consensus pattern (22 bp):
AATTTTTGAAGAAAACTTAGTT
Found at i:7509435 original size:21 final size:21
Alignment explanation
Indices: 7509411--7509453 Score: 86
Period size: 21 Copynumber: 2.0 Consensus size: 21
7509401 TTTTGAAGAA
7509411 AACTTAGTTAATTTTTGATTT
1 AACTTAGTTAATTTTTGATTT
7509432 AACTTAGTTAATTTTTGATTT
1 AACTTAGTTAATTTTTGATTT
7509453 A
1 A
7509454 TTCGTTACAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.30, C:0.05, G:0.09, T:0.56
Consensus pattern (21 bp):
AACTTAGTTAATTTTTGATTT
Found at i:7510230 original size:45 final size:45
Alignment explanation
Indices: 7510078--7510230 Score: 137
Period size: 45 Copynumber: 3.4 Consensus size: 45
7510068 CTGCCAATGA
* * * * * *
7510078 CTGTGGATAGAAAACAAA-ATCCCGCAGATAGAATTTGTGTCTGG
1 CTGTGGATACACAACAAATATCTCGCAGATAGAATCTGTCTCTAG
* * * * * *
7510122 CTGTAGATGCACAAAAAAAATCTCGCAAATAAAATCTGTCTCTAG
1 CTGTGGATACACAACAAATATCTCGCAGATAGAATCTGTCTCTAG
* * * * * *
7510167 CTGTGAAAACATAGCAAATATCTTGCAGATAGAATCTGCCTCTAG
1 CTGTGGATACACAACAAATATCTCGCAGATAGAATCTGTCTCTAG
7510212 CTGTGGATACACAACAAAT
1 CTGTGGATACACAACAAAT
7510231 TTGTAGATAA
Statistics
Matches: 81, Mismatches: 27, Indels: 1
0.74 0.25 0.01
Matches are distributed among these distances:
44 13 0.16
45 68 0.84
ACGTcount: A:0.38, C:0.19, G:0.18, T:0.25
Consensus pattern (45 bp):
CTGTGGATACACAACAAATATCTCGCAGATAGAATCTGTCTCTAG
Found at i:7510332 original size:34 final size:33
Alignment explanation
Indices: 7510294--7510403 Score: 121
Period size: 34 Copynumber: 3.2 Consensus size: 33
7510284 GCAATGTGAC
*
7510294 ATGCTTATAGCAGATCAATTCGGTAGCAATTAAT
1 ATGCTTATAACAGATCAATT-GGTAGCAATTAAT
* * * *
7510328 ATGCTTATAACAAATCAATAAGATAACAATTAAT
1 ATGCTTATAACAGATCAAT-TGGTAGCAATTAAT
* * *
7510362 ATGTTTATAACAGTTCAATATGGTTGCAATTAAT
1 ATGCTTATAACAGATCAAT-TGGTAGCAATTAAT
7510396 ATGCTTAT
1 ATGCTTAT
7510404 CATAAATCAA
Statistics
Matches: 62, Mismatches: 13, Indels: 2
0.81 0.17 0.03
Matches are distributed among these distances:
34 62 1.00
ACGTcount: A:0.40, C:0.12, G:0.13, T:0.35
Consensus pattern (33 bp):
ATGCTTATAACAGATCAATTGGTAGCAATTAAT
Found at i:7510434 original size:68 final size:69
Alignment explanation
Indices: 7510285--7510435 Score: 157
Period size: 68 Copynumber: 2.2 Consensus size: 69
7510275 CTATGCAATG
* * *
7510285 CAATGTGACATGCTTATAGCAGATCAATTCGGTAGCAATTAATATGCTTATAACAAATCAATAAG
1 CAATGAGACATGTTTATAACAGATCAATTCGGTAGCAATTAATATGCTTATAACAAATCAATAAG
7510350 ATAA
66 ATAA
* * * * * * *
7510354 CAATTA-ATATGTTTATAACAGTTCAATAT-GGTTGCAATTAATATGCTTATCATAAATCAATTC
1 CAATGAGACATGTTTATAACAGATCAAT-TCGGTAGCAATTAATATGCTTATAACAAATCAA-TA
*
7510417 AG-TAG
64 AGATAA
7510422 CAA-GAGACATGTTT
1 CAATGAGACATGTTT
7510436 TATCATGCGT
Statistics
Matches: 66, Mismatches: 13, Indels: 7
0.77 0.15 0.08
Matches are distributed among these distances:
67 1 0.02
68 57 0.86
69 8 0.12
ACGTcount: A:0.40, C:0.13, G:0.14, T:0.33
Consensus pattern (69 bp):
CAATGAGACATGTTTATAACAGATCAATTCGGTAGCAATTAATATGCTTATAACAAATCAATAAG
ATAA
Found at i:7512061 original size:17 final size:17
Alignment explanation
Indices: 7512039--7512079 Score: 73
Period size: 17 Copynumber: 2.4 Consensus size: 17
7512029 ATCTCCGACA
7512039 AGCTTCCAACCCAATCG
1 AGCTTCCAACCCAATCG
*
7512056 AGCTTCCAACCCAATTG
1 AGCTTCCAACCCAATCG
7512073 AGCTTCC
1 AGCTTCC
7512080 GATAATCATT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
17 23 1.00
ACGTcount: A:0.27, C:0.39, G:0.12, T:0.22
Consensus pattern (17 bp):
AGCTTCCAACCCAATCG
Found at i:7513936 original size:24 final size:22
Alignment explanation
Indices: 7513908--7513952 Score: 63
Period size: 24 Copynumber: 2.0 Consensus size: 22
7513898 AGATTATTCC
7513908 GCCCTTAAAATATTTTCACTATTG
1 GCCCTTAAAAT-TTTTCA-TATTG
*
7513932 GCCCTTCAAATTTTTCATATT
1 GCCCTTAAAATTTTTCATATT
7513953 TACACTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
22 4 0.20
23 6 0.30
24 10 0.50
ACGTcount: A:0.27, C:0.22, G:0.07, T:0.44
Consensus pattern (22 bp):
GCCCTTAAAATTTTTCATATTG
Found at i:7515632 original size:55 final size:55
Alignment explanation
Indices: 7515548--7515673 Score: 146
Period size: 55 Copynumber: 2.3 Consensus size: 55
7515538 AAAGCACAGA
* * ** * * *
7515548 TTTATGC-ATGCTCTCTGTTAAGTTCGCTTTGTGTGATCTCTCTGTTTGGCTCTGT
1 TTTATGCGA-GCTCTCTGCTAAGTCCGCTTTGTACGAGCTCTCTATTTGGCTCTGC
*
7515603 TTTATGCGAGCTCTTTGCTAAGTCCGCTTTGTACGAGCTCTCTATTTGGCTCTGC
1 TTTATGCGAGCTCTCTGCTAAGTCCGCTTTGTACGAGCTCTCTATTTGGCTCTGC
* *
7515658 TTTGTGTGAGCTCTCT
1 TTTATGCGAGCTCTCT
7515674 ATTTAGCTTT
Statistics
Matches: 59, Mismatches: 11, Indels: 2
0.82 0.15 0.03
Matches are distributed among these distances:
55 58 0.98
56 1 0.02
ACGTcount: A:0.10, C:0.22, G:0.22, T:0.45
Consensus pattern (55 bp):
TTTATGCGAGCTCTCTGCTAAGTCCGCTTTGTACGAGCTCTCTATTTGGCTCTGC
Found at i:7515668 original size:28 final size:28
Alignment explanation
Indices: 7515573--7515677 Score: 86
Period size: 28 Copynumber: 3.8 Consensus size: 28
7515563 TGTTAAGTTC
* * *
7515573 GCTTTGTGTGATCTCTCTGTTTGGCTCT
1 GCTTTGTGCGAGCTCTCTATTTGGCTCT
* * * ** ** *
7515601 GTTTTATGCGAGCTCTTTGCTAAG-TCC
1 GCTTTGTGCGAGCTCTCTATTTGGCTCT
*
7515628 GCTTTGTACGAGCTCTCTATTTGGCTCT
1 GCTTTGTGCGAGCTCTCTATTTGGCTCT
*
7515656 GCTTTGTGTGAGCTCTCTATTT
1 GCTTTGTGCGAGCTCTCTATTT
7515678 AGCTTTGCCT
Statistics
Matches: 56, Mismatches: 20, Indels: 2
0.72 0.26 0.03
Matches are distributed among these distances:
27 18 0.32
28 38 0.68
ACGTcount: A:0.10, C:0.22, G:0.23, T:0.46
Consensus pattern (28 bp):
GCTTTGTGCGAGCTCTCTATTTGGCTCT
Found at i:7515712 original size:29 final size:30
Alignment explanation
Indices: 7515666--7515738 Score: 112
Period size: 30 Copynumber: 2.5 Consensus size: 30
7515656 GCTTTGTGTG
*
7515666 AGCTCTCTATTTAGCTTTGCC-TTATTGCA
1 AGCTTTCTATTTAGCTTTGCCTTTATTGCA
* *
7515695 AGCTTTCTATTTATCTTTGCCTTTTTTGCA
1 AGCTTTCTATTTAGCTTTGCCTTTATTGCA
7515725 AGCTTTCTATTTAG
1 AGCTTTCTATTTAG
7515739 TGAGCTCTTT
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
29 19 0.49
30 20 0.51
ACGTcount: A:0.16, C:0.21, G:0.12, T:0.51
Consensus pattern (30 bp):
AGCTTTCTATTTAGCTTTGCCTTTATTGCA
Found at i:7515877 original size:41 final size:42
Alignment explanation
Indices: 7515805--7515883 Score: 133
Period size: 41 Copynumber: 1.9 Consensus size: 42
7515795 GTTAAGTCTT
*
7515805 ACTCTGTGTGTTCCTTTGAGAGCATGAGCTTTTGTGAGCCTC
1 ACTCTGTGTGCTCCTTTGAGAGCATGAGCTTTTGTGAGCCTC
*
7515847 ACTCTGTGTGCTCC-TTGAGAGCATGGGCTTTTGTGAG
1 ACTCTGTGTGCTCCTTTGAGAGCATGAGCTTTTGTGAG
7515884 ACTTGTGATG
Statistics
Matches: 35, Mismatches: 2, Indels: 1
0.92 0.05 0.03
Matches are distributed among these distances:
41 22 0.63
42 13 0.37
ACGTcount: A:0.14, C:0.20, G:0.29, T:0.37
Consensus pattern (42 bp):
ACTCTGTGTGCTCCTTTGAGAGCATGAGCTTTTGTGAGCCTC
Found at i:7517208 original size:17 final size:17
Alignment explanation
Indices: 7517186--7517219 Score: 68
Period size: 17 Copynumber: 2.0 Consensus size: 17
7517176 TGTATTTTCC
7517186 GTTGCTTTGTTGAAGAT
1 GTTGCTTTGTTGAAGAT
7517203 GTTGCTTTGTTGAAGAT
1 GTTGCTTTGTTGAAGAT
7517220 TAACACTATG
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 17 1.00
ACGTcount: A:0.18, C:0.06, G:0.29, T:0.47
Consensus pattern (17 bp):
GTTGCTTTGTTGAAGAT
Found at i:7521094 original size:111 final size:111
Alignment explanation
Indices: 7520895--7521107 Score: 284
Period size: 111 Copynumber: 1.9 Consensus size: 111
7520885 TATTTCTCTA
* * * * *
7520895 TATTCGGTAAGGTAAGATTTTAGAAAATTTCAGTATTAATTATTTTACCATATATATTTAGTGTT
1 TATTCGGTAAGGTAAGATTTTAAAAAATATAAGTATTAATTATTTCACCATATATATTGAGTGTT
** *
7520960 TATTTGGAAATATTTTTTAAAGATTTTTATAGTTATTATTTTCGTT
66 TATTTGGAAATATTTAATAAAGATATTTATAGTTATTATTTTCGTT
* * * *
7521006 TATTTGGTAAGGTGAGGTTTTAAAAAATATAAGTATTAATTATTTCACTATATATATATGAGTGT
1 TATTCGGTAAGGTAAGATTTTAAAAAATATAAGTATTAATTATTTCACCATATATAT-TGAGTGT
* *
7521071 TTATTTGGAAA-ATTTAATCAAGATATTTATTGTTATT
65 TTATTTGGAAATATTTAATAAAGATATTTATAGTTATT
7521108 TGTTTCTTAT
Statistics
Matches: 87, Mismatches: 14, Indels: 2
0.84 0.14 0.02
Matches are distributed among these distances:
111 70 0.80
112 17 0.20
ACGTcount: A:0.34, C:0.04, G:0.14, T:0.49
Consensus pattern (111 bp):
TATTCGGTAAGGTAAGATTTTAAAAAATATAAGTATTAATTATTTCACCATATATATTGAGTGTT
TATTTGGAAATATTTAATAAAGATATTTATAGTTATTATTTTCGTT
Found at i:7527209 original size:31 final size:32
Alignment explanation
Indices: 7527170--7527263 Score: 95
Period size: 31 Copynumber: 3.0 Consensus size: 32
7527160 AATTAGTCAC
7527170 TAAGCCAAATAAAAACTAATTACATTTTCATT
1 TAAGCCAAATAAAAACTAATTACATTTTCATT
** * * * * *
7527202 TAA-CCAAAT-AAAGTTAGTCAAATTAGTCA-C
1 TAAGCCAAATAAAAACTAATTACATT-TTCATT
7527232 TAAGCCAAATAAAAACTAATTACATTTTCATT
1 TAAGCCAAATAAAAACTAATTACATTTTCATT
7527264 ACCATGGTGA
Statistics
Matches: 44, Mismatches: 14, Indels: 8
0.67 0.21 0.12
Matches are distributed among these distances:
30 13 0.30
31 18 0.41
32 13 0.30
ACGTcount: A:0.47, C:0.16, G:0.05, T:0.32
Consensus pattern (32 bp):
TAAGCCAAATAAAAACTAATTACATTTTCATT
Found at i:7527244 original size:62 final size:62
Alignment explanation
Indices: 7527147--7527263 Score: 234
Period size: 62 Copynumber: 1.9 Consensus size: 62
7527137 GATTTATTTT
7527147 ATAAAGTTAGTCAAATTAGTCACTAAGCCAAATAAAAACTAATTACATTTTCATTTAACCAA
1 ATAAAGTTAGTCAAATTAGTCACTAAGCCAAATAAAAACTAATTACATTTTCATTTAACCAA
7527209 ATAAAGTTAGTCAAATTAGTCACTAAGCCAAATAAAAACTAATTACATTTTCATT
1 ATAAAGTTAGTCAAATTAGTCACTAAGCCAAATAAAAACTAATTACATTTTCATT
7527264 ACCATGGTGA
Statistics
Matches: 55, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
62 55 1.00
ACGTcount: A:0.46, C:0.15, G:0.07, T:0.32
Consensus pattern (62 bp):
ATAAAGTTAGTCAAATTAGTCACTAAGCCAAATAAAAACTAATTACATTTTCATTTAACCAA
Found at i:7527786 original size:2 final size:2
Alignment explanation
Indices: 7527779--7527803 Score: 50
Period size: 2 Copynumber: 12.5 Consensus size: 2
7527769 CCGCCATGAG
7527779 AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT A
7527804 AGAGATCAAG
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 23 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:7543921 original size:10 final size:9
Alignment explanation
Indices: 7543897--7543938 Score: 50
Period size: 9 Copynumber: 4.6 Consensus size: 9
7543887 ATTTGATTTT
*
7543897 TTTTAAAGA
1 TTTTAAAAA
7543906 TTTTAAAAA
1 TTTTAAAAA
7543915 TTATTAAAAA
1 TT-TTAAAAA
7543925 -TTTAAAAA
1 TTTTAAAAA
7543933 GTTTTA
1 -TTTTA
7543939 CTATAAACCT
Statistics
Matches: 29, Mismatches: 1, Indels: 5
0.83 0.03 0.14
Matches are distributed among these distances:
8 7 0.24
9 11 0.38
10 11 0.38
ACGTcount: A:0.50, C:0.00, G:0.05, T:0.45
Consensus pattern (9 bp):
TTTTAAAAA
Found at i:7546913 original size:37 final size:36
Alignment explanation
Indices: 7546870--7546965 Score: 111
Period size: 37 Copynumber: 2.6 Consensus size: 36
7546860 ATGCATGATT
*
7546870 AAGCATGCTATTAAGATTGTTAAACCGAAAGCATGAG
1 AAGCATGCCATTAA-ATTGTTAAACCGAAAGCATGAG
* * *
7546907 AAGCATGCCACTATAATTGTTAAGCCGAAAGCATGAT
1 AAGCATGCCATTA-AATTGTTAAACCGAAAGCATGAG
* *
7546944 AAACATGCCATTGATATTGTTA
1 AAGCATGCCATT-AAATTGTTA
7546966 CTATTATCGA
Statistics
Matches: 50, Mismatches: 7, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
37 48 0.96
38 2 0.04
ACGTcount: A:0.39, C:0.16, G:0.19, T:0.27
Consensus pattern (36 bp):
AAGCATGCCATTAAATTGTTAAACCGAAAGCATGAG
Found at i:7553156 original size:7 final size:7
Alignment explanation
Indices: 7553130--7553227 Score: 105
Period size: 7 Copynumber: 14.3 Consensus size: 7
7553120 TGAAAGCTAA
*
7553130 GAGAGTT
1 GAGAGAT
7553137 GAGAGA-
1 GAGAGAT
7553143 GAG-GAT
1 GAGAGAT
7553149 GAGAGAT
1 GAGAGAT
7553156 GAGAGAT
1 GAGAGAT
7553163 GAGAGAT
1 GAGAGAT
7553170 GAGAGAT
1 GAGAGAT
7553177 GAGAGAT
1 GAGAGAT
7553184 GAGAGGGAT
1 GAGA--GAT
*
7553193 GAGGGAT
1 GAGAGAT
*
7553200 GAGGGAT
1 GAGAGAT
*
7553207 GAGGGAT
1 GAGAGAT
7553214 GA-AG-T
1 GAGAGAT
*
7553219 GAGAAAT
1 GAGAGAT
7553226 GA
1 GA
7553228 CCTCTTATTT
Statistics
Matches: 81, Mismatches: 4, Indels: 12
0.84 0.04 0.12
Matches are distributed among these distances:
5 5 0.06
6 8 0.10
7 62 0.77
9 6 0.07
ACGTcount: A:0.39, C:0.00, G:0.47, T:0.14
Consensus pattern (7 bp):
GAGAGAT
Found at i:7557311 original size:14 final size:13
Alignment explanation
Indices: 7557291--7557322 Score: 55
Period size: 14 Copynumber: 2.4 Consensus size: 13
7557281 AATAAAATTT
7557291 AAAATTAAACTAA
1 AAAATTAAACTAA
7557304 ATAAATTAAACTAA
1 A-AAATTAAACTAA
7557318 AAAAT
1 AAAAT
7557323 ATATTTTAAA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
13 5 0.28
14 13 0.72
ACGTcount: A:0.69, C:0.06, G:0.00, T:0.25
Consensus pattern (13 bp):
AAAATTAAACTAA
Found at i:7565224 original size:35 final size:33
Alignment explanation
Indices: 7565168--7565233 Score: 105
Period size: 35 Copynumber: 1.9 Consensus size: 33
7565158 AAATATGTTC
7565168 AGTGTTTTAATCATTTTCTAAGTCTTGTTCTTA
1 AGTGTTTTAATCATTTTCTAAGTCTTGTTCTTA
*
7565201 AGTGTTTTTGATCATATTTCTAAGTCTTGTTCT
1 AGTG-TTTTAATCAT-TTTCTAAGTCTTGTTCT
7565234 GAAGAAATAT
Statistics
Matches: 30, Mismatches: 1, Indels: 2
0.91 0.03 0.06
Matches are distributed among these distances:
33 4 0.13
34 9 0.30
35 17 0.57
ACGTcount: A:0.20, C:0.12, G:0.14, T:0.55
Consensus pattern (33 bp):
AGTGTTTTAATCATTTTCTAAGTCTTGTTCTTA
Found at i:7566508 original size:25 final size:25
Alignment explanation
Indices: 7566445--7566508 Score: 67
Period size: 25 Copynumber: 2.6 Consensus size: 25
7566435 ACTTACACAG
* * *
7566445 CGATGCAACAGAGAAGTGTCGACGA
1 CGATGCAACAGAGGAGTATCAACGA
**
7566470 CGATGCGGCAGAGGAGTATCAAC-A
1 CGATGCAACAGAGGAGTATCAACGA
7566494 TCGATGCAACAGAGG
1 -CGATGCAACAGAGG
7566509 TGACAGTCGA
Statistics
Matches: 31, Mismatches: 7, Indels: 2
0.77 0.17 0.05
Matches are distributed among these distances:
24 1 0.03
25 30 0.97
ACGTcount: A:0.34, C:0.20, G:0.33, T:0.12
Consensus pattern (25 bp):
CGATGCAACAGAGGAGTATCAACGA
Found at i:7566822 original size:41 final size:40
Alignment explanation
Indices: 7566688--7566822 Score: 146
Period size: 39 Copynumber: 3.4 Consensus size: 40
7566678 TAAAATGATA
* ** * *
7566688 TTTTGCGACATTTTTCTCATAGTGCCGTTAATGCTTGACC
1 TTTTGCGGCATTTTTCTCATAACGTCGCTAATGCTTGACC
* **
7566728 TTTT-CTGCATTTTTCTCATAGTGTCGCTAATGCTTGACC
1 TTTTGCGGCATTTTTCTCATAACGTCGCTAATGCTTGACC
* * *
7566767 TTTTGTGGTATTTTTCTCATAAACGTCGCTACTGCTTGACC
1 TTTTGCGGCATTTTTCTCAT-AACGTCGCTAATGCTTGACC
*
7566808 TTTTGCGGCGTTTTT
1 TTTTGCGGCATTTTT
7566823 TTGTTAGCGC
Statistics
Matches: 80, Mismatches: 13, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 35 0.44
40 16 0.20
41 29 0.36
ACGTcount: A:0.15, C:0.21, G:0.18, T:0.46
Consensus pattern (40 bp):
TTTTGCGGCATTTTTCTCATAACGTCGCTAATGCTTGACC
Found at i:7567842 original size:15 final size:15
Alignment explanation
Indices: 7567824--7567856 Score: 50
Period size: 15 Copynumber: 2.2 Consensus size: 15
7567814 ATTTTCATAA
7567824 GAATTATTTTTTT-TC
1 GAATT-TTTTTTTCTC
7567839 GAATTTTTTTTTCTC
1 GAATTTTTTTTTCTC
7567854 GAA
1 GAA
7567857 AATTCAATGT
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
14 7 0.41
15 10 0.59
ACGTcount: A:0.21, C:0.09, G:0.09, T:0.61
Consensus pattern (15 bp):
GAATTTTTTTTTCTC
Found at i:7572601 original size:22 final size:21
Alignment explanation
Indices: 7572566--7572623 Score: 53
Period size: 22 Copynumber: 2.7 Consensus size: 21
7572556 AAAGGGTATC
* * *
7572566 TACAAATTAAATCTCTAATAT
1 TACAAATCATATCTCTAAGAT
7572587 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATC-TCTAAGAT
* *
7572610 TGCATATCATATCT
1 TACAAATCATATCT
7572624 AAGATTGCAT
Statistics
Matches: 30, Mismatches: 5, Indels: 4
0.77 0.13 0.10
Matches are distributed among these distances:
21 4 0.13
22 17 0.57
23 9 0.30
ACGTcount: A:0.41, C:0.17, G:0.03, T:0.38
Consensus pattern (21 bp):
TACAAATCATATCTCTAAGAT
Found at i:7573324 original size:131 final size:132
Alignment explanation
Indices: 7573099--7573421 Score: 515
Period size: 131 Copynumber: 2.5 Consensus size: 132
7573089 GAGATAAGGT
* **
7573099 TGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGACTCATCGTCTTTGATCTGCTCC
1 TGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCC
* *
7573164 ACTTCTGCTTAGGGAGACAGGATATACAATCTTTAACCTACTCCACTACTGCTC-AGAGAGATAG
66 ACTACTGCTTAGGGAGACAGGATATACAATCTTCAACCTACTCCACTACTGCTCAAG-GAGATAG
7573228 GAC
130 GAC
* * * *
7573231 TGGTGGCTTAAATATGCTT-CCTACTATCTCGGGAATATAAGATTCGCCGTCTTCGATCTGCTCC
1 TGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCC
*
7573295 ACTACTGCTTAGGGAGACAGGATCTACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAGG
66 ACTACTGCTTAGGGAGACAGGATATACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAGG
7573360 AC
131 AC
* *
7573362 TGGTGGCTTAAATCTGCTTCCCTACTACCTTGGGAAGATAAGATCCGCCGTCTTTGATCT
1 TGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTTGATCT
7573422 ATTCCATTGC
Statistics
Matches: 173, Mismatches: 16, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
131 118 0.68
132 55 0.32
ACGTcount: A:0.25, C:0.26, G:0.20, T:0.29
Consensus pattern (132 bp):
TGGTGGCTTAAATCTGCTTCCCTACTACCTCGGGAAGATAAGATTCGCCGTCTTTGATCTGCTCC
ACTACTGCTTAGGGAGACAGGATATACAATCTTCAACCTACTCCACTACTGCTCAAGGAGATAGG
AC
Found at i:7573575 original size:44 final size:44
Alignment explanation
Indices: 7573470--7573808 Score: 197
Period size: 44 Copynumber: 7.6 Consensus size: 44
7573460 TTCAGTCTAT
* * * *
7573470 TCCACTGCAACTGT-AGGGAGATAAGACT-TCA-CTTAAATCCGC
1 TCCACTGCAACT-TCAGGGAGATAAGATTATTAGCTTTAATCTGC
* *
7573512 TCCACTGCAACTTCGGGGAGATAAGATTATTGGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCTGC
* * ** * *
7573556 TCTATTGCAACTTCAGGGAGATAAGA-T-TT-GCCATGATCTAC
1 TCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCTGC
* * * *
7573597 TCTACTGCAACTTCAGAGAGATAAGATCTGTGATTTACAGTTTTAATCTGT
1 TCCACTGCAACTTCAGGGAGATAAGA--T-T-A-TT--AGCTTTAATCTGC
* * * * ** * * *
7573648 TCCACTGCAGCTTCAGGAAAATGAGATTCGCTATCTTCAGTCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATT-ATTAGCTTTAATCTGC
* ** ** * *
7573693 TCCACTGCAACTTCAGGGAGATAAGACTGGTCTCTTCAATCCGC
1 TCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCTGC
* ** * *
7573737 TCCATTATAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGC
1 TCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCTGC
*
7573781 TCCACTACAACTTCAGAGG-GATAAGATT
1 TCCACTGCAACTTCAG-GGAGATAAGATT
7573809 TGCCATCTTC
Statistics
Matches: 225, Mismatches: 58, Indels: 26
0.73 0.19 0.08
Matches are distributed among these distances:
41 33 0.15
42 26 0.12
43 2 0.01
44 99 0.44
45 34 0.15
47 1 0.00
48 3 0.01
49 1 0.00
51 26 0.12
ACGTcount: A:0.28, C:0.22, G:0.20, T:0.30
Consensus pattern (44 bp):
TCCACTGCAACTTCAGGGAGATAAGATTATTAGCTTTAATCTGC
Found at i:7573612 original size:41 final size:43
Alignment explanation
Indices: 7573515--7573623 Score: 132
Period size: 41 Copynumber: 2.6 Consensus size: 43
7573505 AATCCGCTCC
* ** *
7573515 ACTGCAACTTCGGGGAGATAAGATTATTGGCTTTAATCTGCTCT
1 ACTGCAACTTCAGGGAGATAAGA-TATTGGCCATAATCTACTCT
* *
7573559 ATTGCAACTTCAGGGAGATAAGAT-TT-GCCATGATCTACTCT
1 ACTGCAACTTCAGGGAGATAAGATATTGGCCATAATCTACTCT
*
7573600 ACTGCAACTTCAGAGAGATAAGAT
1 ACTGCAACTTCAGGGAGATAAGAT
7573624 CTGTGATTTA
Statistics
Matches: 57, Mismatches: 8, Indels: 3
0.84 0.12 0.04
Matches are distributed among these distances:
41 33 0.58
42 2 0.04
43 1 0.02
44 21 0.37
ACGTcount: A:0.30, C:0.18, G:0.21, T:0.30
Consensus pattern (43 bp):
ACTGCAACTTCAGGGAGATAAGATATTGGCCATAATCTACTCT
Found at i:7573989 original size:152 final size:152
Alignment explanation
Indices: 7573730--7574016 Score: 405
Period size: 152 Copynumber: 1.9 Consensus size: 152
7573720 TGGTCTCTTC
* * **
7573730 AATCCGCTCCATTATAACTTCAGGGAGATAGGATTATTGGCTTTAATCTGCTCCACTACAACTTC
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCAACTCCACTACAACTTC
* *
7573795 AGAGGGATAAGATTTGCCATCTTCAGTCTACCCCACTTCAACTTCAAGGGGATAAGACTTGCTTT
66 AGAGGGATAAGATTTGCCATCTTCAGTCTACCCCACTGCAACTTCAAGGGGATAAGACTTACTTT
7573860 CTTCAATAAGACTTGGAACTTT
131 CTTCAATAAGACTTGGAACTTT
* * * ** *
7573882 AATCTGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCAACTTCACTGCATTTTT
1 AATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCAACTCCACTACAACTTC
* * * *
7573947 AG-GGAGATAAGATTTGCCATCTTTATTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTACTT
66 AGAGG-GATAAGATTTGCCATCTTCAGTCTACCCCACTGCAACTTCAAGGGGATAAGACTTACTT
*
7574011 TTTTCA
130 TCTTCA
7574017 GTCTGCTCCA
Statistics
Matches: 117, Mismatches: 17, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
151 2 0.02
152 115 0.98
ACGTcount: A:0.28, C:0.22, G:0.17, T:0.33
Consensus pattern (152 bp):
AATCCGCTCCACTACAACTTCAGGGAGATAGGATTATTGGCTTTAATCAACTCCACTACAACTTC
AGAGGGATAAGATTTGCCATCTTCAGTCTACCCCACTGCAACTTCAAGGGGATAAGACTTACTTT
CTTCAATAAGACTTGGAACTTT
Found at i:7574001 original size:45 final size:46
Alignment explanation
Indices: 7573947--7574052 Score: 117
Period size: 45 Copynumber: 2.3 Consensus size: 46
7573937 CTGCATTTTT
* * *
7573947 AGGGAGATAAGATTTGCCATCTTT-ATTCTGCCCCACTGCAACTTC
1 AGGGAGATAAGATTTGACATCTTTCAGTCTGCCCCACTACAACTTC
* * * * *
7573992 AGGGGGATAAGACTT-ACTTTTTTCAGTCTGCTCCACTACAACTTC
1 AGGGAGATAAGATTTGACATCTTTCAGTCTGCCCCACTACAACTTC
*
7574037 AAGGAGATAAGATTTG
1 AGGGAGATAAGATTTG
7574053 TAACTTTAAT
Statistics
Matches: 48, Mismatches: 11, Indels: 3
0.77 0.18 0.05
Matches are distributed among these distances:
44 5 0.10
45 43 0.90
ACGTcount: A:0.27, C:0.22, G:0.20, T:0.31
Consensus pattern (46 bp):
AGGGAGATAAGATTTGACATCTTTCAGTCTGCCCCACTACAACTTC
Found at i:7574087 original size:44 final size:43
Alignment explanation
Indices: 7573878--7574182 Score: 227
Period size: 44 Copynumber: 6.9 Consensus size: 43
7573868 AGACTTGGAA
* * *
7573878 CTTTAATCTGCTCCACTACAACTTCAGGGAGATAGGATTATTGG
1 CTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATT-TTAG
* * * ** * * *
7573922 CTTTAATCAACTTCACTGCATTTTTAGGGAGATAAGATTTGCCAT
1 CTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATTT--TAG
* * * * *
7573967 CTTTATTCTGCCCCACTGCAACTTCAGGGGGATAAGACTTACTT--
1 CTTTAATCTACTCCACTACAACTTCAGGGAGATAAGA-TT--TTAG
* * * * *
7574011 TTTTCAGTCTGCTCCACTACAACTTCAAGGAGATAAGATTTGTAA
1 CTTT-AATCTACTCCACTACAACTTCAGGGAGATAAGATTT-TAG
* * * * *
7574056 CTTTAATCCACTCCACTGCAACTTTAGGGAGATAGGATTATTGG
1 CTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATT-TTAG
* * * *
7574100 CTTTAATCCACTCCATTACAACTTCAGGGAGATAGGATTATTGG
1 CTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATT-TTAG
*
7574144 CTTTAATCTACTCCACTACAACTTTAGGGAGATAAGATT
1 CTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATT
7574183 CGCCATCTTA
Statistics
Matches: 207, Mismatches: 44, Indels: 20
0.76 0.16 0.07
Matches are distributed among these distances:
42 1 0.00
43 2 0.01
44 141 0.68
45 60 0.29
46 2 0.01
48 1 0.00
ACGTcount: A:0.29, C:0.21, G:0.17, T:0.33
Consensus pattern (43 bp):
CTTTAATCTACTCCACTACAACTTCAGGGAGATAAGATTTTAG
Found at i:7578838 original size:19 final size:19
Alignment explanation
Indices: 7578814--7578857 Score: 54
Period size: 19 Copynumber: 2.3 Consensus size: 19
7578804 GTGAAAATCC
*
7578814 AATGCATATG-ATGCAATG
1 AATGCAGATGCATGCAATG
*
7578832 TAATGCAGATGCATGGAATG
1 -AATGCAGATGCATGCAATG
7578852 AATGCA
1 AATGCA
7578858 AAAAGAAAGA
Statistics
Matches: 22, Mismatches: 2, Indels: 2
0.85 0.08 0.08
Matches are distributed among these distances:
19 15 0.68
20 7 0.32
ACGTcount: A:0.39, C:0.11, G:0.25, T:0.25
Consensus pattern (19 bp):
AATGCAGATGCATGCAATG
Found at i:7581500 original size:23 final size:22
Alignment explanation
Indices: 7581457--7581514 Score: 64
Period size: 22 Copynumber: 2.6 Consensus size: 22
7581447 AAAGGGTATC
* *
7581457 TACAAATTAAATC-TCTAAGAT
1 TACAAATCATATCTTCTAAGAT
7581478 TACAAAATCATATCTTCTAAGAT
1 TAC-AAATCATATCTTCTAAGAT
* *
7581501 TGCATATCATATCT
1 TACAAATCATATCT
7581515 AAGATTGCAT
Statistics
Matches: 31, Mismatches: 4, Indels: 3
0.82 0.11 0.08
Matches are distributed among these distances:
21 3 0.10
22 18 0.58
23 10 0.32
ACGTcount: A:0.41, C:0.17, G:0.05, T:0.36
Consensus pattern (22 bp):
TACAAATCATATCTTCTAAGAT
Found at i:7585264 original size:22 final size:22
Alignment explanation
Indices: 7585239--7585295 Score: 96
Period size: 22 Copynumber: 2.6 Consensus size: 22
7585229 AAGCGTGTTA
*
7585239 GGCACTAAGCCTGAATAACATC
1 GGCACTAAGCCTGAATAACACC
7585261 GGCACTAAGCCTGAATAACACC
1 GGCACTAAGCCTGAATAACACC
*
7585283 AGCACTAAGCCTG
1 GGCACTAAGCCTG
7585296 CTAGGCACTA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
22 33 1.00
ACGTcount: A:0.35, C:0.30, G:0.19, T:0.16
Consensus pattern (22 bp):
GGCACTAAGCCTGAATAACACC
Found at i:7585313 original size:38 final size:38
Alignment explanation
Indices: 7585261--7585357 Score: 142
Period size: 38 Copynumber: 2.6 Consensus size: 38
7585251 GAATAACATC
*
7585261 GGCACTAAGCCTGAATAACACC-AGCACTAAGCCTGCTA
1 GGCACTAAGCCTGAATAACACCGA-CACTAAGCATGCTA
* *
7585299 GGCACTAAGACTGAACAACACCGACACTAAGCATGCTA
1 GGCACTAAGCCTGAATAACACCGACACTAAGCATGCTA
*
7585337 AGCACTAAGCCTGAATAACAC
1 GGCACTAAGCCTGAATAACAC
7585358 TGTATAAATT
Statistics
Matches: 52, Mismatches: 6, Indels: 2
0.87 0.10 0.03
Matches are distributed among these distances:
38 51 0.98
39 1 0.02
ACGTcount: A:0.38, C:0.30, G:0.18, T:0.14
Consensus pattern (38 bp):
GGCACTAAGCCTGAATAACACCGACACTAAGCATGCTA
Found at i:7587862 original size:49 final size:49
Alignment explanation
Indices: 7587756--7587848 Score: 161
Period size: 49 Copynumber: 1.9 Consensus size: 49
7587746 CATGCTATGT
*
7587756 AATGC-TAAACTTAGTCTTCCACTATCTACACTCTTATCACTATTATAC
1 AATGCTTAAACTTAGTCTTCCACTATCTACACTCTTATCAATATTATAC
*
7587804 AATGCTTAAACTTGGTCTTCCACTATCTACACTCTTATCAATATT
1 AATGCTTAAACTTAGTCTTCCACTATCTACACTCTTATCAATATT
7587849 TATTCCCTCT
Statistics
Matches: 42, Mismatches: 2, Indels: 1
0.93 0.04 0.02
Matches are distributed among these distances:
48 5 0.12
49 37 0.88
ACGTcount: A:0.30, C:0.26, G:0.05, T:0.39
Consensus pattern (49 bp):
AATGCTTAAACTTAGTCTTCCACTATCTACACTCTTATCAATATTATAC
Done.