Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr3
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: 26558743
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1281270 characters in sequence are not A, C, G, or T
File 21 of 79
Found at i:7053898 original size:27 final size:28
Alignment explanation
Indices: 7053831--7053907 Score: 95
Period size: 28 Copynumber: 2.8 Consensus size: 28
7053821 TTTTTAAAAA
*
7053831 AAAAT-CCTAAACCCTAATTTATTTTTT
1 AAAATACCTAAACCATAATTTATTTTTT
* *
7053858 AAAATCCCTAAACCTTAATTTATTTTTT
1 AAAATACCTAAACCATAATTTATTTTTT
* *
7053886 AAAATATCT-AACCATAAATTAT
1 AAAATACCTAAACCATAATTTAT
7053908 AAACTCTAAA
Statistics
Matches: 44, Mismatches: 5, Indels: 2
0.86 0.10 0.04
Matches are distributed among these distances:
27 16 0.36
28 28 0.64
ACGTcount: A:0.42, C:0.17, G:0.00, T:0.42
Consensus pattern (28 bp):
AAAATACCTAAACCATAATTTATTTTTT
Found at i:7066702 original size:41 final size:41
Alignment explanation
Indices: 7066645--7066726 Score: 164
Period size: 41 Copynumber: 2.0 Consensus size: 41
7066635 GGTGAGACAT
7066645 CCTTTATTACCTTCATATTCTTTTATCCTCCACTTGTATGA
1 CCTTTATTACCTTCATATTCTTTTATCCTCCACTTGTATGA
7066686 CCTTTATTACCTTCATATTCTTTTATCCTCCACTTGTATGA
1 CCTTTATTACCTTCATATTCTTTTATCCTCCACTTGTATGA
7066727 TCATCTTTAT
Statistics
Matches: 41, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
41 41 1.00
ACGTcount: A:0.20, C:0.27, G:0.05, T:0.49
Consensus pattern (41 bp):
CCTTTATTACCTTCATATTCTTTTATCCTCCACTTGTATGA
Found at i:7070909 original size:11 final size:10
Alignment explanation
Indices: 7070859--7070909 Score: 50
Period size: 10 Copynumber: 4.8 Consensus size: 10
7070849 TAACATGTTG
*
7070859 AATTTTAATT
1 AATTTTGATT
7070869 AATTTT-ATAAT
1 AATTTTGAT--T
7070880 AAATTTTGATT
1 -AATTTTGATT
7070891 AATTTTGATT
1 AATTTTGATT
7070901 AAGTTTTGA
1 AA-TTTTGA
7070910 CATATTCGTA
Statistics
Matches: 36, Mismatches: 0, Indels: 9
0.80 0.00 0.20
Matches are distributed among these distances:
9 2 0.06
10 18 0.50
11 8 0.22
12 6 0.17
13 2 0.06
ACGTcount: A:0.37, C:0.00, G:0.08, T:0.55
Consensus pattern (10 bp):
AATTTTGATT
Found at i:7075898 original size:41 final size:42
Alignment explanation
Indices: 7075803--7075963 Score: 132
Period size: 41 Copynumber: 3.8 Consensus size: 42
7075793 AGCTCATACA
* * * * * *
7075803 ATGCCAACGTCCTAGACGTGGTCTTACATGTAATCACATATCG
1 ATGCCAATGTCCCAGACATGGGCTTACACGTAA-CACAAATCG
* *
7075846 ATGCCACTGTCCCAGATA-GGGTCTTACACG-AA-ACAAATACG
1 ATGCCAATGTCCCAGACATGGG-CTTACACGTAACACAAAT-CG
* * *
7075887 ATGCCAATGTCCCAAACATGGGCTTACACGTAACACAAGTTG
1 ATGCCAATGTCCCAGACATGGGCTTACACGTAACACAAATCG
* * *
7075929 ATGCCAA-GTCCCAGACGTGGTCTTAGACGATAACA
1 ATGCCAATGTCCCAGACATGGGCTTACACG-TAACA
7075964 TATATTGAAA
Statistics
Matches: 95, Mismatches: 17, Indels: 13
0.76 0.14 0.10
Matches are distributed among these distances:
40 5 0.05
41 43 0.45
42 22 0.23
43 25 0.26
ACGTcount: A:0.32, C:0.26, G:0.20, T:0.22
Consensus pattern (42 bp):
ATGCCAATGTCCCAGACATGGGCTTACACGTAACACAAATCG
Found at i:7078819 original size:41 final size:41
Alignment explanation
Indices: 7078695--7078881 Score: 241
Period size: 41 Copynumber: 4.6 Consensus size: 41
7078685 TTATTTCCTA
* * * *
7078695 AATTTCACATACGTGTCCCTATTTGTACCTTGGTACCCCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTG
* * * * *
7078736 AATTGCACATACGTG-TCCTATTTTTACTTCGGTACCCTTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTG
*
7078776 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACACCTG
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTG
* * *
7078817 AATTGCACATATGTGCCCCTGTTTGTACTTTTGTACCCCTA
1 AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTG
*
7078858 AATTGCACATACGTGCCCATGTTT
1 AATTGCACATACGTGCCCCTGTTT
7078882 ACATTCTGGT
Statistics
Matches: 127, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
40 35 0.28
41 92 0.72
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (41 bp):
AATTGCACATACGTGCCCCTGTTTGTACTTTGGTACCCCTG
Found at i:7078903 original size:82 final size:81
Alignment explanation
Indices: 7078691--7078881 Score: 222
Period size: 81 Copynumber: 2.3 Consensus size: 81
7078681 TTAATTATTT
* * * * * *
7078691 CCTAAATTTCACATACGTGTCCC-TATTTGTACCTTGGTACCCCTGAATTGCACATACGTGTCCT
1 CCTAAATTGCACATACGTG-CCCATGTTTGTACTTTGGTACACCTAAATTGCACATACGTGCCCT
*
7078755 ATTTTTACTTCGGTACC
65 ATTTGTACTTCGGTACC
* * * * *
7078772 CTTGAATTGCACATACGTGCCCCTGTTTGTACTTTGGTACACCTGAATTGCACATATGTGCCCCT
1 CCTAAATTGCACATACGTGCCCATGTTTGTACTTTGGTACACCTAAATTGCACATACGTG-CCCT
* **
7078837 GTTTGTACTTTTGTACC
65 ATTTGTACTTCGGTACC
7078854 CCTAAATTGCACATACGTGCCCATGTTT
1 CCTAAATTGCACATACGTGCCCATGTTT
7078882 ACATTCTGGT
Statistics
Matches: 93, Mismatches: 15, Indels: 3
0.84 0.14 0.03
Matches are distributed among these distances:
80 3 0.03
81 49 0.53
82 41 0.44
ACGTcount: A:0.20, C:0.27, G:0.16, T:0.37
Consensus pattern (81 bp):
CCTAAATTGCACATACGTGCCCATGTTTGTACTTTGGTACACCTAAATTGCACATACGTGCCCTA
TTTGTACTTCGGTACC
Found at i:7085522 original size:18 final size:18
Alignment explanation
Indices: 7085491--7085525 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
7085481 AAGAAAAGAA
**
7085491 ATTGAAAAGGAAATTGAG
1 ATTGAAAAAAAAATTGAG
7085509 ATTGAAAAAAAAATTGA
1 ATTGAAAAAAAAATTGA
7085526 AAAAGTAAAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.57, C:0.00, G:0.20, T:0.23
Consensus pattern (18 bp):
ATTGAAAAAAAAATTGAG
Found at i:7093069 original size:11 final size:10
Alignment explanation
Indices: 7093039--7093080 Score: 50
Period size: 11 Copynumber: 4.1 Consensus size: 10
7093029 ATTGTATTGG
7093039 ATTAAAAAAA
1 ATTAAAAAAA
*
7093049 A-TAAAGAAA
1 ATTAAAAAAA
7093058 ATTCAAAAAAA
1 ATT-AAAAAAA
7093069 ATTGAAAAAAA
1 ATT-AAAAAAA
7093080 A
1 A
7093081 AAGTGAAAAA
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
9 8 0.30
10 2 0.07
11 17 0.63
ACGTcount: A:0.76, C:0.02, G:0.05, T:0.17
Consensus pattern (10 bp):
ATTAAAAAAA
Found at i:7093080 original size:13 final size:13
Alignment explanation
Indices: 7093062--7093138 Score: 66
Period size: 13 Copynumber: 5.6 Consensus size: 13
7093052 AAGAAAATTC
7093062 AAAAAAAATTGAA
1 AAAAAAAATTGAA
*
7093075 AAAAAAAAGTG-A
1 AAAAAAAATTGAA
*
7093087 AAAAAAAATCGAGCAA
1 AAAAAAAAT--TG-AA
**
7093103 AAAAAAAGAGAGAA
1 AAAAAAA-ATTGAA
7093117 AGAAAAAAATTGAA
1 A-AAAAAAATTGAA
7093131 AAAAAAAA
1 AAAAAAAA
7093139 GAGAAGAGGA
Statistics
Matches: 52, Mismatches: 6, Indels: 12
0.74 0.09 0.17
Matches are distributed among these distances:
12 9 0.17
13 17 0.33
14 9 0.17
15 8 0.15
16 8 0.15
17 1 0.02
ACGTcount: A:0.77, C:0.03, G:0.13, T:0.08
Consensus pattern (13 bp):
AAAAAAAATTGAA
Found at i:7099218 original size:27 final size:27
Alignment explanation
Indices: 7099171--7099315 Score: 166
Period size: 27 Copynumber: 5.4 Consensus size: 27
7099161 CCCCAAAATA
* * *
7099171 GGTAAAATAACCAAAATACCCTCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
7099198 GGTAAAATGACCGAAACACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* *
7099225 GGTAGAATGATCGAAATA-CCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
* * ** *
7099251 AGTAGAATGATTGAAATACCCCCATCG
1 GGTAAAATGACCGAAATACCCCCATAG
*
7099278 GGTAAAATGATCGAAATACCCCCATAG
1 GGTAAAATGACCGAAATACCCCCATAG
*
7099305 GATAAAATGAC
1 GGTAAAATGAC
7099316 TGTTATACCC
Statistics
Matches: 101, Mismatches: 16, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
26 24 0.24
27 77 0.76
ACGTcount: A:0.42, C:0.22, G:0.18, T:0.18
Consensus pattern (27 bp):
GGTAAAATGACCGAAATACCCCCATAG
Found at i:7099250 original size:53 final size:53
Alignment explanation
Indices: 7099184--7099315 Score: 174
Period size: 53 Copynumber: 2.5 Consensus size: 53
7099174 AAAATAACCA
*
7099184 AAATACCCTCATAGGGTAAAATGACCGAAACACCCCCATAGGGTAGAATGATCG
1 AAATACCC-CATAGGGTAAAATGACCGAAACACCCCCATAGGGTAAAATGATCG
* * ** * *
7099238 AAATACCCCATAGAGTAGAATGATTGAAATACCCCCATCGGGTAAAATGATCG
1 AAATACCCCATAGGGTAAAATGACCGAAACACCCCCATAGGGTAAAATGATCG
*
7099291 AAATACCCCCATAGGATAAAATGAC
1 AAATA-CCCCATAGGGTAAAATGAC
7099316 TGTTATACCC
Statistics
Matches: 66, Mismatches: 11, Indels: 2
0.84 0.14 0.03
Matches are distributed among these distances:
53 43 0.65
54 23 0.35
ACGTcount: A:0.41, C:0.23, G:0.18, T:0.18
Consensus pattern (53 bp):
AAATACCCCATAGGGTAAAATGACCGAAACACCCCCATAGGGTAAAATGATCG
Found at i:7106338 original size:91 final size:91
Alignment explanation
Indices: 7106190--7106371 Score: 256
Period size: 91 Copynumber: 2.0 Consensus size: 91
7106180 GAAATGATGG
** * * * * * *
7106190 ACGTCCCAACCTCGTTCGAAAGAAAAGTTATGTCGACATCTAGACAAGTAAGAAGGGAGAGCAGT
1 ACGTCCCAACCTCACTCAAAAGAAAAGTTATATCAACATCTAAACAAGAAAGAAGGGAGAGAAGT
*
7106255 AGTGCAATAAATCGATGGAATGATAA
66 AGTGCAAAAAATCGATGGAATGATAA
* * *
7106281 ACGTCCCAACCTCACTCAAAAGAAAAGTTATATCAAGATCTAAAGAAGAAAGGAGGGAGAGAAGT
1 ACGTCCCAACCTCACTCAAAAGAAAAGTTATATCAACATCTAAACAAGAAAGAAGGGAGAGAAGT
7106346 AGTGCAAAAAATCGATGGAATGATAA
66 AGTGCAAAAAATCGATGGAATGATAA
7106372 TATGAATGCA
Statistics
Matches: 79, Mismatches: 12, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
91 79 1.00
ACGTcount: A:0.43, C:0.15, G:0.23, T:0.18
Consensus pattern (91 bp):
ACGTCCCAACCTCACTCAAAAGAAAAGTTATATCAACATCTAAACAAGAAAGAAGGGAGAGAAGT
AGTGCAAAAAATCGATGGAATGATAA
Found at i:7108727 original size:590 final size:587
Alignment explanation
Indices: 7107848--7109033 Score: 2327
Period size: 590 Copynumber: 2.0 Consensus size: 587
7107838 TGCATTTATG
7107848 ACTGTTTGTGTTCTACTAGGATAATGAAATTACATGTATGATTTGTTGATGGATGCATATGTTTG
1 ACTGTTTGTGTTCTACTAGGATAATGAAATTACATGTATGATTTGTTGATGGATGCATATGTTTG
*
7107913 AAAACCTTAATGCTTGTGTACTTTGTACGATAATGAACTTAGGTATTTGATATTGAAAGTGGTAA
66 AAAACCTTAATGCTTGTGTACTTTGTACAATAATGAACTTAGGTATTTGATATTGAAAGTGGTAA
7107978 GTTGTTTACATATGCTAGGATTATGTTTAAATATGAAAATGCTTAGTTATGTACTCCAACACTAA
131 GTTGTTTACATATGCTAGGATTATGTTTAAATATGAAAATGCTTAGTTATGTACTCCAACACTAA
7108043 TCTTTGTATCATACTTGCTCATGGGATGTCTTTTACTTTTTATTTTTCTTTCGCTTTACTTGGGA
196 TCTTTGTATCATACTTGCTCATGGGATGTCTTTTACTTTTTATTTTTCTTTCGCTTTACTTGGGA
7108108 ACAAGCAATGACTTAAGTGTGGGGGAGTTTGATCTACTGTAATTTGGTGTAGTAGATTAAACTAG
261 ACAAGCAATGACTTAAGTGTGGGGGAGTTTGATCTACTGTAATTTGGTGTAGTAGATTAAACTAG
7108173 TTTTTGTACTTGAGAAGCTTGAATATGAGAAATTTTAGTATTTTAGTATTTATGTTTTCTTAGTT
326 TTTTTGTACTTGAGAAGCTTGAATATGAGAAATTTTAGTATTTTAGTATTTATGTTTTCTTAGTT
7108238 TAGATTAAATTTAATAAAAAGTGTATTTTGAGTCTTTTGTTAACCTTAGGTGCCGAATGAAGCTT
391 TAGATTAAATTTAATAAAAAGTGTATTTTGAGTCTTTTGTTAACCTTAGGTGCCGAATGAAGCTT
7108303 AAAAGTGAGATAACATTTTTAGTGAGTGTGTAGGAGACCAGTCAAAAGCATAGGAACTCAAAGGT
456 AAAAGTGAGATAACATTTTTAGTGAGTGTGTAGGAGACCAGTCAAAAGCATAGGAACTCAAAGGT
7108368 GGTCGCTATGTTGCAACACAGAGAGATTGATGTCGCAACATAGGGAGCAGAATGCTAGAACCACT
521 GGTCGCTATGTTGCAACACAGAGAGATTGATGTCGCAACATAGGGAGCAGAATGCTAGAACCACT
7108433 AT
586 AT
7108435 ACTGTTTGTGTTCTACTAGGATAATGAAATTACATGTATGATTTGTTGATGGATGCATATGTTTG
1 ACTGTTTGTGTTCTACTAGGATAATGAAATTACATGTATGATTTGTTGATGGATGCATATGTTTG
7108500 AAAACCTTAATGCTTGTGTACTTTGTACAATAATGAACTTAGGTATTTGATATTGAAAGTGGTAA
66 AAAACCTTAATGCTTGTGTACTTTGTACAATAATGAACTTAGGTATTTGATATTGAAAGTGGTAA
7108565 GTTGTTTACATATCATGCTAGGATTATGTTTAAATATGAAAATGCTTAGTTATGTACTCCAACAC
131 GTTGTTTAC--AT-ATGCTAGGATTATGTTTAAATATGAAAATGCTTAGTTATGTACTCCAACAC
7108630 TAATCTTTGTATCATACTTGCTCATGGGATGTCTTTTACTTTTTATTTTTCTTTCGCTTTACTTG
193 TAATCTTTGTATCATACTTGCTCATGGGATGTCTTTTACTTTTTATTTTTCTTTCGCTTTACTTG
7108695 GGAACAAGCAATGACTTAAGTGTGGGGGAGTTTGATCTACTGTAATTTGGTGTAGTAGATTAAAC
258 GGAACAAGCAATGACTTAAGTGTGGGGGAGTTTGATCTACTGTAATTTGGTGTAGTAGATTAAAC
7108760 TAGTTTTTGTACTTGAGAAGCTTGAATATGAGAAATTTTAGTATTTTAGTATTTATGTTTTCTTA
323 TAGTTTTTGTACTTGAGAAGCTTGAATATGAGAAATTTTAGTATTTTAGTATTTATGTTTTCTTA
7108825 GTTTAGATTAAATTTAATAAAAAGTGTATTTTGAGTCTTTTGTTAACCTTAGGTGCCGAATGAAG
388 GTTTAGATTAAATTTAATAAAAAGTGTATTTTGAGTCTTTTGTTAACCTTAGGTGCCGAATGAAG
7108890 CTTAAAAGTGAGATAACATTTTTAGTGAGTGTGTAGGAGACCAGTCAAAAGCATAGGAACTCAAA
453 CTTAAAAGTGAGATAACATTTTTAGTGAGTGTGTAGGAGACCAGTCAAAAGCATAGGAACTCAAA
7108955 GGTGGTCGCTATGTTGCAACACAGAGAGATTGATGTCGCAACATAGGGAGCAGAATGCTAGAACC
518 GGTGGTCGCTATGTTGCAACACAGAGAGATTGATGTCGCAACATAGGGAGCAGAATGCTAGAACC
7109020 ACTAT
583 ACTAT
7109025 ACTGCTTTG
1 ACTG-TTTG
7109034 GATGTCACGA
Statistics
Matches: 594, Mismatches: 1, Indels: 4
0.99 0.00 0.01
Matches are distributed among these distances:
587 138 0.23
589 2 0.00
590 450 0.76
591 4 0.01
ACGTcount: A:0.30, C:0.11, G:0.21, T:0.38
Consensus pattern (587 bp):
ACTGTTTGTGTTCTACTAGGATAATGAAATTACATGTATGATTTGTTGATGGATGCATATGTTTG
AAAACCTTAATGCTTGTGTACTTTGTACAATAATGAACTTAGGTATTTGATATTGAAAGTGGTAA
GTTGTTTACATATGCTAGGATTATGTTTAAATATGAAAATGCTTAGTTATGTACTCCAACACTAA
TCTTTGTATCATACTTGCTCATGGGATGTCTTTTACTTTTTATTTTTCTTTCGCTTTACTTGGGA
ACAAGCAATGACTTAAGTGTGGGGGAGTTTGATCTACTGTAATTTGGTGTAGTAGATTAAACTAG
TTTTTGTACTTGAGAAGCTTGAATATGAGAAATTTTAGTATTTTAGTATTTATGTTTTCTTAGTT
TAGATTAAATTTAATAAAAAGTGTATTTTGAGTCTTTTGTTAACCTTAGGTGCCGAATGAAGCTT
AAAAGTGAGATAACATTTTTAGTGAGTGTGTAGGAGACCAGTCAAAAGCATAGGAACTCAAAGGT
GGTCGCTATGTTGCAACACAGAGAGATTGATGTCGCAACATAGGGAGCAGAATGCTAGAACCACT
AT
Found at i:7115299 original size:29 final size:29
Alignment explanation
Indices: 7115228--7115416 Score: 145
Period size: 29 Copynumber: 6.6 Consensus size: 29
7115218 GGCGATCATT
*
7115228 GAATATGAAAAGGGATAGCTTCGGC-ATC
1 GAATATGAAAAGGGATAGCTTCGACTATC
* * *
7115256 GATTATGAAACGGGATAGCTTCGGCTATC
1 GAATATGAAAAGGGATAGCTTCGACTATC
** *
7115285 GAATATGAAAAGGGATAGCTTTAAATATC
1 GAATATGAAAAGGGATAGCTTCGACTATC
** * * * * *
7115314 GGTTACGAAAAGGGAT-GGTGACGACCAAC
1 GAATATGAAAAGGGATAGCT-TCGACTATC
*
7115343 -AACTATGAAAAGGGAT-GGTGAT-GACTATC
1 GAA-TATGAAAAGGGATAGCT--TCGACTATC
* *
7115372 GAATATGAAAAGGGATAGCTTTGGCTATC
1 GAATATGAAAAGGGATAGCTTCGACTATC
*
7115401 GATTATGAAAAGGGAT
1 GAATATGAAAAGGGAT
7115417 GGGGATGACC
Statistics
Matches: 126, Mismatches: 28, Indels: 13
0.75 0.17 0.08
Matches are distributed among these distances:
28 26 0.21
29 96 0.76
30 4 0.03
ACGTcount: A:0.37, C:0.12, G:0.28, T:0.24
Consensus pattern (29 bp):
GAATATGAAAAGGGATAGCTTCGACTATC
Found at i:7115379 original size:87 final size:87
Alignment explanation
Indices: 7115280--7115454 Score: 260
Period size: 87 Copynumber: 2.0 Consensus size: 87
7115270 ATAGCTTCGG
* *
7115280 CTATCGAATATGAAAAGGGATAGCTTTAAATATCGGTTACGAAAAGGGATGGTGACGACCAACAA
1 CTATCGAATATGAAAAGGGATAGCTTTAAATATCGATTACGAAAAGGGATGGGGACGACCAACAA
7115345 CTATGAAAAGGGATGGTGATGA
66 CTATGAAAAGGGATGGTGATGA
*** * * * *
7115367 CTATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGGGATGACCATCAT
1 CTATCGAATATGAAAAGGGATAGCTTTAAATATCGATTACGAAAAGGGATGGGGACGACCAACAA
*
7115432 CTATGAAAGGGGATGGTGATGA
66 CTATGAAAAGGGATGGTGATGA
7115454 C
1 C
7115455 CATCAATTAA
Statistics
Matches: 78, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
87 78 1.00
ACGTcount: A:0.36, C:0.11, G:0.29, T:0.23
Consensus pattern (87 bp):
CTATCGAATATGAAAAGGGATAGCTTTAAATATCGATTACGAAAAGGGATGGGGACGACCAACAA
CTATGAAAAGGGATGGTGATGA
Found at i:7115436 original size:29 final size:29
Alignment explanation
Indices: 7115311--7115502 Score: 158
Period size: 29 Copynumber: 6.6 Consensus size: 29
7115301 AGCTTTAAAT
* * *
7115311 ATCGGTTACGAAAAGGGATGGTGACGACC
1 ATCGATTATGAAAAGGGATGGTGATGACC
* * * *
7115340 AACAACTATGAAAAGGGATGGTGATGACT
1 ATCGATTATGAAAAGGGATGGTGATGACC
* * * * *
7115369 ATCGAATATGAAAAGGGATAGCT-TTGGCT
1 ATCGATTATGAAAAGGGAT-GGTGATGACC
*
7115398 ATCGATTATGAAAAGGGATGGGGATGACC
1 ATCGATTATGAAAAGGGATGGTGATGACC
*
7115427 ATC-ATCTATGAAAGGGGATGGTGATGACC
1 ATCGAT-TATGAAAAGGGATGGTGATGACC
* * *
7115456 ATCAATTAATG-AAAGGGATGGT-TTCAACC
1 ATCGATT-ATGAAAAGGGATGGTGAT-GACC
*
7115485 ATCGAATATGAAAAGGGA
1 ATCGATTATGAAAAGGGA
7115503 CGGTTACAAC
Statistics
Matches: 130, Mismatches: 26, Indels: 14
0.76 0.15 0.08
Matches are distributed among these distances:
28 7 0.05
29 116 0.89
30 7 0.05
ACGTcount: A:0.36, C:0.12, G:0.29, T:0.22
Consensus pattern (29 bp):
ATCGATTATGAAAAGGGATGGTGATGACC
Found at i:7115489 original size:87 final size:87
Alignment explanation
Indices: 7115282--7115502 Score: 259
Period size: 87 Copynumber: 2.5 Consensus size: 87
7115272 AGCTTCGGCT
** * * *
7115282 ATCGAATATGAAAAGGGATAGCTTTAAATATCGGTTACGAAAAGGGATGGTGACGACCAACAACT
1 ATCGAATATGAAAAGGGATAGCTTTAACCATCGATTATGAAAAGGGATGGGGACGACCAACAACT
*
7115347 ATGAAAAGGGATGGTGATGACT
66 ATGAAAAGGGATGGTGATGACC
** * * * *
7115369 ATCGAATATGAAAAGGGATAGCTTTGGCTATCGATTATGAAAAGGGATGGGGATGACCATCATCT
1 ATCGAATATGAAAAGGGATAGCTTTAACCATCGATTATGAAAAGGGATGGGGACGACCAACAACT
*
7115434 ATGAAAGGGGATGGTGATGACC
66 ATGAAAAGGGATGGTGATGACC
* *
7115456 ATC-AATTAATG-AAAGGGAT-GGTTTCAACCATCGAATATGAAAAGGGA
1 ATCGAA-T-ATGAAAAGGGATAGCTTT-AACCATCGATTATGAAAAGGGA
7115503 CGGTTACAAC
Statistics
Matches: 115, Mismatches: 16, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
86 6 0.05
87 106 0.92
88 3 0.03
ACGTcount: A:0.38, C:0.11, G:0.28, T:0.23
Consensus pattern (87 bp):
ATCGAATATGAAAAGGGATAGCTTTAACCATCGATTATGAAAAGGGATGGGGACGACCAACAACT
ATGAAAAGGGATGGTGATGACC
Found at i:7118057 original size:12 final size:12
Alignment explanation
Indices: 7118042--7118068 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
7118032 ATATGTATTA
7118042 AAATATATATAT
1 AAATATATATAT
7118054 AAATATATATAT
1 AAATATATATAT
7118066 AAA
1 AAA
7118069 AAAGAAAGAA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 15 1.00
ACGTcount: A:0.63, C:0.00, G:0.00, T:0.37
Consensus pattern (12 bp):
AAATATATATAT
Found at i:7120727 original size:45 final size:45
Alignment explanation
Indices: 7120678--7120783 Score: 158
Period size: 45 Copynumber: 2.4 Consensus size: 45
7120668 TCGGCCATAG
* * *
7120678 TGCTTTCTCAATTTGTTCCATAAATTATGCATGATGTTGGCCAAA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAA
* * *
7120723 TGCTTCCTTAAATTCTTCCATGAATTATGCATGATGTTGGTCAAA
1 TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAA
7120768 TGCTTCCTCAAATTCT
1 TGCTTCCTCAAATTCT
7120784 NNNNNNNNNN
Statistics
Matches: 54, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 54 1.00
ACGTcount: A:0.25, C:0.20, G:0.14, T:0.41
Consensus pattern (45 bp):
TGCTTCCTCAAATTCTTCCATAAATTATGCATGATGTTGGCCAAA
Found at i:7127832 original size:45 final size:45
Alignment explanation
Indices: 7127768--7128081 Score: 619
Period size: 45 Copynumber: 7.0 Consensus size: 45
7127758 NNNNNNNNNN
*
7127768 AAATTCTTCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
1 AAATTCTCCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
7127813 AAATTCTCCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
1 AAATTCTCCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
7127858 AAATTCTCCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
1 AAATTCTCCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
7127903 AAATTCTCCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
1 AAATTCTCCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
7127948 AAATTCTCCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
1 AAATTCTCCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
7127993 AAATTCTCCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
1 AAATTCTCCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
7128038 AAATTCTCCCATGAATTATGCATGATGTTGGTCAAATGCTTCCT
1 AAATTCTCCCATGAATTATGCATGATGTTGGTCAAATGCTTCCT
7128082 TAATTTCATG
Statistics
Matches: 268, Mismatches: 1, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
45 268 1.00
ACGTcount: A:0.27, C:0.22, G:0.16, T:0.36
Consensus pattern (45 bp):
AAATTCTCCCATGAATTATGCATGATGTTGGTCAAATGCTTCCTC
Found at i:7128641 original size:44 final size:43
Alignment explanation
Indices: 7128593--7128696 Score: 102
Period size: 44 Copynumber: 2.4 Consensus size: 43
7128583 CCGCTTCAAC
* *
7128593 GCAACTTTAGGAAGATAGGACTAGTAATTTCAATATGCTCCACT
1 GCAACTTTAGGAAGATAGG-CTAGTAATTTCAAGATGCCCCACT
* ** * * *
7128637 GCAACTTCAGGGGGATAAGGTTAGTGATTTCAAGCTGCCCCACT
1 GCAACTTTAGGAAGAT-AGGCTAGTAATTTCAAGATGCCCCACT
*
7128681 GCAAC-TTGGGAAGATA
1 GCAACTTTAGGAAGATA
7128697 AGATTTACCG
Statistics
Matches: 47, Mismatches: 12, Indels: 4
0.75 0.19 0.06
Matches are distributed among these distances:
42 1 0.02
43 6 0.13
44 37 0.79
45 3 0.06
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (43 bp):
GCAACTTTAGGAAGATAGGCTAGTAATTTCAAGATGCCCCACT
Found at i:7128881 original size:46 final size:46
Alignment explanation
Indices: 7128817--7129021 Score: 329
Period size: 46 Copynumber: 4.5 Consensus size: 46
7128807 TCATTGCCAG
* *
7128817 TACAAGAAGACAAGATCTGCTATCTTCGATCCAATCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCCACTCCGCTGCCAAA
* *
7128863 TACAGGAAGACAATATCTGCTATCTTTGATCCACTCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCCACTCCGCTGCCAAA
* * *
7128909 TACAGGAAGACAAGATCTTCTATCTTCGATCTACTCCGCTACCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCCACTCCGCTGCCAAA
*
7128955 TACAGGAAGACAAGATCTGCTATCTTCGATCTACTCCGCTGCCAAA
1 TACAGGAAGACAAGATCTGCTATCTTCGATCCACTCCGCTGCCAAA
*
7129001 TACAAGAAGACAAGATCTGCT
1 TACAGGAAGACAAGATCTGCT
7129022 GCTTTTAGTC
Statistics
Matches: 147, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
46 147 1.00
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (46 bp):
TACAGGAAGACAAGATCTGCTATCTTCGATCCACTCCGCTGCCAAA
Found at i:7130288 original size:103 final size:103
Alignment explanation
Indices: 7129980--7130547 Score: 922
Period size: 103 Copynumber: 5.5 Consensus size: 103
7129970 CAAAGAAATT
* * * * *
7129980 AATCAGGATAGAAAATTTTGCTAAGATTCAAAATGAATAAGATGAAAAGGATTATCACAATGGAC
1 AATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGAT-AAAAAGATTATCACAATGGAC
* * *
7130045 AAGATGGAATTTTATTGAGAACAAAGCTCGAAATAAATA
65 AATATGGAATTTTATTGAGAACAAAGCTGGAAATGAATA
** * * *
7130084 AATAAACAAGATAGCAAATTTTGCTAAGATATGAACTGAATAAGATGAAAAGTATTATGACAATG
1 AAT---CAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGATAAAAAG-ATTATCACAATG
* * * *
7130149 G-CTAAGATAGAATTTTATTGAGAACAAGGCTCGAAATGAATA
62 GAC-AATATGGAATTTTATTGAGAACAAAGCTGGAAATGAATA
7130191 AATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGATAAAAAGATTATCACAATGGACA
1 AATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGATAAAAAGATTATCACAATGGACA
7130256 ATATGGAATTTTATTGAGAACAAAGCTGGAAATGAATA
66 ATATGGAATTTTATTGAGAACAAAGCTGGAAATGAATA
7130294 AATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGATAAAAAGATTATCACAATGGACA
1 AATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGATAAAAAGATTATCACAATGGACA
7130359 ATATGGAATTTTATTGAGAACAAAGCTGGAAATGAATA
66 ATATGGAATTTTATTGAGAACAAAGCTGGAAATGAATA
7130397 AATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGATAAAAAGATTATCACAATGGACA
1 AATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGATAAAAAGATTATCACAATGGACA
7130462 ATATGGAATTTTATTGAGAACAAAGCTGGAAATGAATA
66 ATATGGAATTTTATTGAGAACAAAGCTGGAAATGAATA
7130500 AATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGATAAAAA
1 AATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGATAAAAA
7130548 TTTTGCTAGA
Statistics
Matches: 437, Mismatches: 21, Indels: 13
0.93 0.04 0.03
Matches are distributed among these distances:
103 301 0.69
104 46 0.11
106 5 0.01
107 85 0.19
ACGTcount: A:0.49, C:0.09, G:0.17, T:0.26
Consensus pattern (103 bp):
AATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGATAAAAAGATTATCACAATGGACA
ATATGGAATTTTATTGAGAACAAAGCTGGAAATGAATA
Found at i:7130569 original size:32 final size:33
Alignment explanation
Indices: 7130512--7130579 Score: 93
Period size: 32 Copynumber: 2.1 Consensus size: 33
7130502 TCAAGATAGC
*
7130512 AAATTTTGCTAAGATACAAATTGAATAAGATAA
1 AAATTTTGCTAAGATACAAACTGAATAAGATAA
** *
7130545 AAATTTTGCT-AGATATGAACTGAATAAGATGA
1 AAATTTTGCTAAGATACAAACTGAATAAGATAA
7130577 AAA
1 AAA
7130580 GTATTATGAC
Statistics
Matches: 31, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
32 21 0.68
33 10 0.32
ACGTcount: A:0.50, C:0.06, G:0.15, T:0.29
Consensus pattern (33 bp):
AAATTTTGCTAAGATACAAACTGAATAAGATAA
Found at i:7130653 original size:136 final size:136
Alignment explanation
Indices: 7130409--7130683 Score: 437
Period size: 136 Copynumber: 2.0 Consensus size: 136
7130399 TCAAGATAGC
* * *
7130409 AAATTTTGCTAAGATACAAATTGAATAAGATAAAAAGATTATCACAATGGACAATATGGAATTTT
1 AAATTTTGCTAAGATACAAACTGAATAAGATAAAAAGATTATCACAATGGACAAGATAGAATTTT
*
7130474 ATTGAGAACAAAGCTGGAAATGAATAAATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATA
66 ATTGAGAACAAAGCTCGAAATGAATAAATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATA
7130539 AGATAA
131 AGATAA
** * *
7130545 AAATTTTGCT-AGATATGAACTGAATAAGATGAAAAGTATTATGACAATGG-CTAAGATAGAATT
1 AAATTTTGCTAAGATACAAACTGAATAAGATAAAAAG-ATTATCACAATGGAC-AAGATAGAATT
*
7130608 TTATTGAGAACAAGGCTCGAAATGAATAAATCAAGATAGCAAATTTTGCTAAGATACAAATTGAA
64 TTATTGAGAACAAAGCTCGAAATGAATAAATCAAGATAGCAAATTTTGCTAAGATACAAATTGAA
7130673 TAAGATAA
129 TAAGATAA
7130681 AAA
1 AAA
7130684 GATTATCACA
Statistics
Matches: 128, Mismatches: 9, Indels: 4
0.91 0.06 0.03
Matches are distributed among these distances:
135 23 0.18
136 105 0.82
ACGTcount: A:0.48, C:0.08, G:0.16, T:0.27
Consensus pattern (136 bp):
AAATTTTGCTAAGATACAAACTGAATAAGATAAAAAGATTATCACAATGGACAAGATAGAATTTT
ATTGAGAACAAAGCTCGAAATGAATAAATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATA
AGATAA
Found at i:7130725 original size:239 final size:239
Alignment explanation
Indices: 7130306--7130770 Score: 817
Period size: 239 Copynumber: 1.9 Consensus size: 239
7130296 TCAAGATAGC
* * *
7130306 AAATTTTGCTAAGATACAAATTGAATAAGATAAAAAGATTATCACAATGGACAATATGGAATTTT
1 AAATTTTGCTAAGATACAAACTGAATAAGATAAAAAGATTATCACAATGGACAAGATAGAATTTT
*
7130371 ATTGAGAACAAAGCTGGAAATGAATAAATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATA
66 ATTGAGAACAAAGCTCGAAATGAATAAATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATA
7130436 AGATAAAAAGATTATCACAATGGACAATATGGAATTTTATTGAGAACAAAGCTGGAAATGAATAA
131 AGATAAAAAGATTATCACAATGGACAATATGGAATTTTATTGAGAACAAAGCTGGAAATGAATAA
7130501 ATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGATAA
196 ATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGATAA
** * *
7130545 AAATTTTGCT-AGATATGAACTGAATAAGATGAAAAGTATTATGACAATGG-CTAAGATAGAATT
1 AAATTTTGCTAAGATACAAACTGAATAAGATAAAAAG-ATTATCACAATGGAC-AAGATAGAATT
*
7130608 TTATTGAGAACAAGGCTCGAAATGAATAAATCAAGATAGCAAATTTTGCTAAGATACAAATTGAA
64 TTATTGAGAACAAAGCTCGAAATGAATAAATCAAGATAGCAAATTTTGCTAAGATACAAATTGAA
7130673 TAAGATAAAAAGATTATCACAATGGACAATATGGAATTTTATTGAGAACAAAGCTGGAAATGAAT
129 TAAGATAAAAAGATTATCACAATGGACAATATGGAATTTTATTGAGAACAAAGCTGGAAATGAAT
7130738 AAATCAAGATAGCAAATTTTGCTAAGATACAAA
194 AAATCAAGATAGCAAATTTTGCTAAGATACAAA
7130771 ATGAGAATAA
Statistics
Matches: 215, Mismatches: 9, Indels: 4
0.94 0.04 0.02
Matches are distributed among these distances:
238 23 0.11
239 192 0.89
ACGTcount: A:0.48, C:0.09, G:0.17, T:0.27
Consensus pattern (239 bp):
AAATTTTGCTAAGATACAAACTGAATAAGATAAAAAGATTATCACAATGGACAAGATAGAATTTT
ATTGAGAACAAAGCTCGAAATGAATAAATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATA
AGATAAAAAGATTATCACAATGGACAATATGGAATTTTATTGAGAACAAAGCTGGAAATGAATAA
ATCAAGATAGCAAATTTTGCTAAGATACAAATTGAATAAGATAA
Found at i:7130733 original size:103 final size:104
Alignment explanation
Indices: 7130545--7130770 Score: 341
Period size: 103 Copynumber: 2.2 Consensus size: 104
7130535 AATAAGATAA
** * *
7130545 AAATTTTGCT-AGATATGAACTGAATAAGATGAAAAGTATTATGACAATGGCTAAGATAGAATTT
1 AAATTTTGCTAAGATACAAACTGAATAAGATAAAAAGTATTATCACAATGGCTAAGATAGAATTT
*
7130609 TATTGAGAACAAGGCTCGAAATGAATAAATCAAGATAGC
66 TATTGAGAACAAAGCTCGAAATGAATAAATCAAGATAGC
* * *
7130648 AAATTTTGCTAAGATACAAATTGAATAAGATAAAAAG-ATTATCACAATGGAC-AATATGGAATT
1 AAATTTTGCTAAGATACAAACTGAATAAGATAAAAAGTATTATCACAATGG-CTAAGATAGAATT
*
7130711 TTATTGAGAACAAAGCTGGAAATGAATAAATCAAGATAGC
65 TTATTGAGAACAAAGCTCGAAATGAATAAATCAAGATAGC
7130751 AAATTTTGCTAAGATACAAA
1 AAATTTTGCTAAGATACAAA
7130771 ATGAGAATAA
Statistics
Matches: 112, Mismatches: 9, Indels: 4
0.90 0.07 0.03
Matches are distributed among these distances:
103 89 0.79
104 23 0.21
ACGTcount: A:0.47, C:0.09, G:0.17, T:0.27
Consensus pattern (104 bp):
AAATTTTGCTAAGATACAAACTGAATAAGATAAAAAGTATTATCACAATGGCTAAGATAGAATTT
TATTGAGAACAAAGCTCGAAATGAATAAATCAAGATAGC
Found at i:7131111 original size:1 final size:1
Alignment explanation
Indices: 7131107--7131183 Score: 55
Period size: 1 Copynumber: 77.0 Consensus size: 1
7131097 TTCTTTCTTC
* * * * * * * * * *
7131107 TTTTTTCTTTCTTTTCTTTTTTCTTTTCTTTTTTTTTGTTTTTTGTTTTTTTGTTTTTGTTTTTG
1 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
*
7131172 TTTGTTTTTTTT
1 TTTTTTTTTTTT
7131184 GAACATTCTT
Statistics
Matches: 54, Mismatches: 22, Indels: 0
0.71 0.29 0.00
Matches are distributed among these distances:
1 54 1.00
ACGTcount: A:0.00, C:0.06, G:0.08, T:0.86
Consensus pattern (1 bp):
T
Found at i:7131129 original size:12 final size:12
Alignment explanation
Indices: 7131095--7131140 Score: 67
Period size: 12 Copynumber: 3.9 Consensus size: 12
7131085 GGCCTCTCCT
*
7131095 TTTTCTTTCTTC
1 TTTTCTTTTTTC
*
7131107 TTTT-TTCTTTC
1 TTTTCTTTTTTC
7131118 TTTTCTTTTTTC
1 TTTTCTTTTTTC
7131130 TTTTCTTTTTT
1 TTTTCTTTTTT
7131141 TTTGTTTTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 2
0.86 0.09 0.06
Matches are distributed among these distances:
11 9 0.30
12 21 0.70
ACGTcount: A:0.00, C:0.17, G:0.00, T:0.83
Consensus pattern (12 bp):
TTTTCTTTTTTC
Found at i:7131132 original size:7 final size:7
Alignment explanation
Indices: 7131094--7131170 Score: 66
Period size: 7 Copynumber: 10.6 Consensus size: 7
7131084 TGGCCTCTCC
7131094 TTTTTCT
1 TTTTTCT
*
7131101 TTCTTCT
1 TTTTTCT
7131108 TTTTTCTT
1 TTTTTC-T
7131116 TCTTTTCT
1 T-TTTTCT
7131124 TTTTTCT
1 TTTTTCT
*
7131131 TTTCTTTT
1 TTT-TTCT
*
7131139 TTTTTGT
1 TTTTTCT
*
7131146 TTTTTGT
1 TTTTTCT
7131153 TTTTT-T
1 TTTTTCT
*
7131159 GTTTTTGT
1 -TTTTTCT
7131167 TTTT
1 TTTT
7131171 GTTTGTTTTT
Statistics
Matches: 61, Mismatches: 4, Indels: 10
0.81 0.05 0.13
Matches are distributed among these distances:
6 1 0.02
7 44 0.72
8 11 0.18
9 5 0.08
ACGTcount: A:0.00, C:0.10, G:0.05, T:0.84
Consensus pattern (7 bp):
TTTTTCT
Found at i:7131148 original size:21 final size:20
Alignment explanation
Indices: 7131093--7131183 Score: 78
Period size: 21 Copynumber: 4.5 Consensus size: 20
7131083 TTGGCCTCTC
* * *
7131093 CTTTTTCTTTCTTCTTTTTT
1 CTTTTTTTTTGTTTTTTTTT
*
7131113 CTTTCTTTTCTT-TTTTCTTTT
1 CTTT-TTTT-TTGTTTTTTTTT
7131134 CTTTTTTTTTGTTTTTTGTTT
1 CTTTTTTTTTGTTTTTT-TTT
*
7131155 -TTTTGTTTTTGTTTTTGTTT
1 CTTTT-TTTTTGTTTTTTTTT
*
7131175 GTTTTTTTT
1 CTTTTTTTT
7131184 GAACATTCTT
Statistics
Matches: 60, Mismatches: 5, Indels: 12
0.78 0.06 0.16
Matches are distributed among these distances:
19 2 0.03
20 24 0.40
21 32 0.53
22 2 0.03
ACGTcount: A:0.00, C:0.10, G:0.07, T:0.84
Consensus pattern (20 bp):
CTTTTTTTTTGTTTTTTTTT
Found at i:7131149 original size:16 final size:16
Alignment explanation
Indices: 7131094--7131180 Score: 81
Period size: 16 Copynumber: 5.3 Consensus size: 16
7131084 TGGCCTCTCC
7131094 TTTTTCTTTCTTCTTTT-
1 TTTTTCTTT-TT-TTTTG
7131111 TTCTTTCTTTTCTTTTT-
1 TT-TTTCTTTT-TTTTTG
7131128 TCTTTTCTTTTTTTTTG
1 T-TTTTCTTTTTTTTTG
*
7131145 TTTTT-TGTTTTTTTG
1 TTTTTCTTTTTTTTTG
* *
7131160 TTTTTGTTTTTGTTTG
1 TTTTTCTTTTTTTTTG
7131176 TTTTT
1 TTTTT
7131181 TTTGAACATT
Statistics
Matches: 62, Mismatches: 3, Indels: 11
0.82 0.04 0.14
Matches are distributed among these distances:
15 14 0.23
16 22 0.35
17 17 0.27
18 9 0.15
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (16 bp):
TTTTTCTTTTTTTTTG
Found at i:7131150 original size:12 final size:12
Alignment explanation
Indices: 7131118--7131184 Score: 64
Period size: 12 Copynumber: 5.4 Consensus size: 12
7131108 TTTTTCTTTC
* *
7131118 TTTTCTTTTTTC
1 TTTTGTTTTTTT
*
7131130 TTTTCTTTTTTT
1 TTTTGTTTTTTT
7131142 TTGTT-TTTTGTTT
1 TT-TTGTTTT-TTT
*
7131155 TTTTGTTTTTGT
1 TTTTGTTTTTTT
7131167 TTTTGTTTGTTTT
1 TTTTGTTT-TTTT
7131180 TTTTG
1 TTTTG
7131185 AACATTCTTT
Statistics
Matches: 48, Mismatches: 3, Indels: 7
0.83 0.05 0.12
Matches are distributed among these distances:
12 29 0.60
13 19 0.40
ACGTcount: A:0.00, C:0.04, G:0.10, T:0.85
Consensus pattern (12 bp):
TTTTGTTTTTTT
Found at i:7131158 original size:31 final size:30
Alignment explanation
Indices: 7131094--7131181 Score: 51
Period size: 30 Copynumber: 2.9 Consensus size: 30
7131084 TGGCCTCTCC
* *
7131094 TTTTTCTTTCTTCTTTT-TTCTTTCTTTT-CT
1 TTTTTCTTTTTTCTTTTCTT-TTT-TTTTGTT
7131124 TTTTTCTTTTCTT-TTTT-TTTGTTTTTTGTT
1 TTTTTCTTTT-TTCTTTTCTTT-TTTTTTGTT
* *
7131154 TTTTTGTTTTTGT-TTTTGTTTGTTTTTT
1 TTTTTCTTTTT-TCTTTTCTTT-TTTTTT
7131182 TTGAACATTC
Statistics
Matches: 50, Mismatches: 3, Indels: 9
0.81 0.05 0.15
Matches are distributed among these distances:
29 6 0.12
30 32 0.64
31 12 0.24
ACGTcount: A:0.00, C:0.09, G:0.07, T:0.84
Consensus pattern (30 bp):
TTTTTCTTTTTTCTTTTCTTTTTTTTTGTT
Found at i:7131182 original size:24 final size:25
Alignment explanation
Indices: 7131130--7131182 Score: 72
Period size: 24 Copynumber: 2.2 Consensus size: 25
7131120 TTCTTTTTTC
* *
7131130 TTTTCTTTTTTTTTGTTTTTTGTTT
1 TTTTCTTTTTGTTTGTTGTTTGTTT
*
7131155 TTTTGTTTTTGTTT-TTGTTTGTTT
1 TTTTCTTTTTGTTTGTTGTTTGTTT
7131179 TTTT
1 TTTT
7131183 TGAACATTCT
Statistics
Matches: 25, Mismatches: 3, Indels: 1
0.86 0.10 0.03
Matches are distributed among these distances:
24 13 0.52
25 12 0.48
ACGTcount: A:0.00, C:0.02, G:0.11, T:0.87
Consensus pattern (25 bp):
TTTTCTTTTTGTTTGTTGTTTGTTT
Found at i:7133899 original size:106 final size:107
Alignment explanation
Indices: 7133702--7133915 Score: 412
Period size: 106 Copynumber: 2.0 Consensus size: 107
7133692 AATCCTCAGG
7133702 CCACGAAGCAAGGTCACGAACTCTTCCATCACCCTTCTTGTGTTTCTTAGAATATATTCAGGCAG
1 CCACGAAGCAAGGTCACGAACTCTTCCATCACCCTTCTTGTGTTTCTTAGAATATATTCAGGCAG
7133767 ACGTATTGTTTTCCACTTTATCAAAGAATTCGTATTCCATGA
66 ACGTATTGTTTTCCACTTTATCAAAGAATTCGTATTCCATGA
7133809 CCACGAAGCAA-GTCACGAACTCTTCCATCACCCTTCTTGTGTTTCTTAGAATATATTCAGGCAG
1 CCACGAAGCAAGGTCACGAACTCTTCCATCACCCTTCTTGTGTTTCTTAGAATATATTCAGGCAG
*
7133873 ACGTATTGTTTTCCACTTTATCAAAGAATTTGTATTCCATGA
66 ACGTATTGTTTTCCACTTTATCAAAGAATTCGTATTCCATGA
7133915 C
1 C
7133916 AAGTTTTCTA
Statistics
Matches: 106, Mismatches: 1, Indels: 1
0.98 0.01 0.01
Matches are distributed among these distances:
106 95 0.90
107 11 0.10
ACGTcount: A:0.27, C:0.24, G:0.14, T:0.34
Consensus pattern (107 bp):
CCACGAAGCAAGGTCACGAACTCTTCCATCACCCTTCTTGTGTTTCTTAGAATATATTCAGGCAG
ACGTATTGTTTTCCACTTTATCAAAGAATTCGTATTCCATGA
Found at i:7138916 original size:26 final size:26
Alignment explanation
Indices: 7138880--7138929 Score: 100
Period size: 26 Copynumber: 1.9 Consensus size: 26
7138870 ACTTACTAAT
7138880 TTAATTATAACTCGAGTTATGAAAAG
1 TTAATTATAACTCGAGTTATGAAAAG
7138906 TTAATTATAACTCGAGTTATGAAA
1 TTAATTATAACTCGAGTTATGAAA
7138930 CTTGAAATTT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 24 1.00
ACGTcount: A:0.42, C:0.08, G:0.14, T:0.36
Consensus pattern (26 bp):
TTAATTATAACTCGAGTTATGAAAAG
Found at i:7139874 original size:20 final size:20
Alignment explanation
Indices: 7139849--7139887 Score: 62
Period size: 20 Copynumber: 1.9 Consensus size: 20
7139839 TTGCTTCATC
7139849 TTTACTTACTCT-CTTACTTG
1 TTTACTTACT-TGCTTACTTG
7139869 TTTACTTACTTGCTTACTT
1 TTTACTTACTTGCTTACTT
7139888 AAATAACTCA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
19 1 0.06
20 17 0.94
ACGTcount: A:0.15, C:0.23, G:0.05, T:0.56
Consensus pattern (20 bp):
TTTACTTACTTGCTTACTTG
Found at i:7140154 original size:50 final size:50
Alignment explanation
Indices: 7140088--7140281 Score: 201
Period size: 50 Copynumber: 3.8 Consensus size: 50
7140078 TGATACTAAC
* * **
7140088 ATGCCAAAGCCGTGTCCCAGACATGGTCTTACATGGGAGTTCTCATATCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* ** *
7140138 ATGCCCATGCCATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
* * *
7140188 GTGCCAACGCCATGTCCTAGACATGGTCTTACGA-GGGACCTCTCATAACCTCAG
1 ATGCCAATGCCATGTCCCAGACATGGTCTTAC-ATGGGACCTCTCAT-A--TC-G
* *
7140242 TAATTCCAATGCCATTTCCCAGACATGGTCTTACATGGGA
1 --ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGA
7140282 TCTCATCCCC
Statistics
Matches: 117, Mismatches: 19, Indels: 10
0.80 0.13 0.07
Matches are distributed among these distances:
50 82 0.70
53 2 0.02
54 1 0.01
55 1 0.01
56 31 0.26
ACGTcount: A:0.23, C:0.29, G:0.22, T:0.25
Consensus pattern (50 bp):
ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATATCG
Found at i:7147710 original size:50 final size:50
Alignment explanation
Indices: 7147651--7147787 Score: 186
Period size: 50 Copynumber: 2.7 Consensus size: 50
7147641 ATGCGAAAGT
* ** * *
7147651 CATGTCCTAGACATGGTCTTACATGGGAGTTCTCATATTGGTG-CACATGC
1 CATGTCCTAGACATGGTCTTACGTGGGACCTCTCATATCGGTGCCA-ACGC
* *
7147701 CATGTCCTAGACATGGTCTTACGGGGGACCTCTCATCTCGGTGCCAACGC
1 CATGTCCTAGACATGGTCTTACGTGGGACCTCTCATATCGGTGCCAACGC
*
7147751 CATGTCCCAGACATGGTCTTACGTGGGACCTCTCATA
1 CATGTCCTAGACATGGTCTTACGTGGGACCTCTCATA
7147788 ACCTCAATAA
Statistics
Matches: 76, Mismatches: 10, Indels: 2
0.86 0.11 0.02
Matches are distributed among these distances:
50 74 0.97
51 2 0.03
ACGTcount: A:0.20, C:0.28, G:0.24, T:0.28
Consensus pattern (50 bp):
CATGTCCTAGACATGGTCTTACGTGGGACCTCTCATATCGGTGCCAACGC
Found at i:7174713 original size:43 final size:43
Alignment explanation
Indices: 7174575--7174829 Score: 268
Period size: 43 Copynumber: 6.0 Consensus size: 43
7174565 TTATGTGAAA
* **
7174575 AAACGCCGCTATAA-AACATGACATTTAGCGGCGCTTTTAT-AA
1 AAACGCCGCTA-AAGAACATGACCTTTAGCGGCGCTTTTATCGC
* * * * * *
7174617 AAATGCCACTAAAGAACATAACCATTAGTGGCGC-TTTA-CCC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCGC
* * *
7174658 ATAAACGTCGCTATAA-AACATGATCTTTAGCGGCTCTTTTATCGC
1 --AAACGCCGCTA-AAGAACATGACCTTTAGCGGCGCTTTTATCGC
*
7174703 AAACGCCGCTAAAGAACATGACCTTTAGCAGCGCTTTTATCGC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCGC
* * * * *
7174746 AAACACCACTAAAGAATATGACCTTTAGCAGTGCTTTTATCGC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCGC
*
7174789 AAACGCCGCTAAAGAACATGACCTTTGGCGGCGCTTTTATC
1 AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATC
7174830 AGAAATGCTG
Statistics
Matches: 174, Mismatches: 31, Indels: 15
0.79 0.14 0.07
Matches are distributed among these distances:
41 6 0.03
42 27 0.16
43 133 0.76
44 6 0.03
45 2 0.01
ACGTcount: A:0.32, C:0.25, G:0.17, T:0.26
Consensus pattern (43 bp):
AAACGCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCGC
Found at i:7175973 original size:17 final size:20
Alignment explanation
Indices: 7175935--7175974 Score: 59
Period size: 17 Copynumber: 2.1 Consensus size: 20
7175925 ATGTGAGCAT
7175935 CACTTCTCCTACTTTGAAAA
1 CACTTCTCCTACTTTGAAAA
7175955 CACTT-TCC-ACTTT-AAAA
1 CACTTCTCCTACTTTGAAAA
7175972 CAC
1 CAC
7175975 AATAGAATTC
Statistics
Matches: 20, Mismatches: 0, Indels: 3
0.87 0.00 0.13
Matches are distributed among these distances:
17 7 0.35
18 5 0.25
19 3 0.15
20 5 0.25
ACGTcount: A:0.33, C:0.33, G:0.03, T:0.33
Consensus pattern (20 bp):
CACTTCTCCTACTTTGAAAA
Found at i:7177943 original size:40 final size:41
Alignment explanation
Indices: 7177899--7178024 Score: 150
Period size: 40 Copynumber: 3.1 Consensus size: 41
7177889 TTTTGCGGCA
* * * *
7177899 TTTTTCAAAAAGCGTCGCTTATGGTCGACCTATAGCGGTGT
1 TTTTTCAAAAAGCGTCGCTAATGCTCGATCTATAGCGGCGT
*
7177940 TTTTTGAAAAATGC-T-GCTAATGCTCGATCTATAGCGGCG-
1 TTTTTCAAAAA-GCGTCGCTAATGCTCGATCTATAGCGGCGT
* * *
7177979 TTTTTCAAAATGCGTCGCTAATGCTCGATCTATAGTGGCAT
1 TTTTTCAAAAAGCGTCGCTAATGCTCGATCTATAGCGGCGT
7178020 TTTTT
1 TTTTT
7178025 ATCCAAACGC
Statistics
Matches: 72, Mismatches: 9, Indels: 8
0.81 0.10 0.09
Matches are distributed among these distances:
38 2 0.03
39 10 0.14
40 42 0.58
41 16 0.22
42 2 0.03
ACGTcount: A:0.23, C:0.18, G:0.21, T:0.37
Consensus pattern (41 bp):
TTTTTCAAAAAGCGTCGCTAATGCTCGATCTATAGCGGCGT
Found at i:7178356 original size:138 final size:138
Alignment explanation
Indices: 7178073--7178356 Score: 405
Period size: 138 Copynumber: 2.1 Consensus size: 138
7178063 TGCTGTAGTG
* *
7178073 AATTATAT-TTTTTTCAAAAGAATATTAATTTCCTTATCTTTTATATTTTGATTGAAATTAATTA
1 AATTATATATTTTTCCAAAAGAATATTAATTTCCTTATATTTTATATTTTGATTGAAATTAATTA
* * * * *
7178137 ATATAACTGTTTATATTAATAAATTCATTAAAATATATACAATTAATATTCCATTTGGATCAAAT
66 ATATAACTGTTAATATTAATAAATTCAGT-AAATATATACAATTAATATTCCATATGAAACAAAT
7178202 TCATATATT
130 TCATATATT
*
7178211 AATTATAT-TATTTCCAAAAGAATATTAATTTCCATT-TATTTTATATTTTGATTGAAATTAATT
1 AATTATATATTTTTCCAAAAGAATATTAATTTCC-TTATATTTTATATTTTGATTGAAATTAATT
* * ***
7178274 AATATAACTGTTAATATTAATAAATTCGGT-AATATATATAATTAATATTTTGTATGAAACAAAT
65 AATATAACTGTTAATATTAATAAATTCAGTAAATATATACAATTAATATTCCATATGAAACAAAT
7178338 TCATATATT
130 TCATATATT
7178347 AATTATATAT
1 AATTATATAT
7178357 ATGTTCTCTA
Statistics
Matches: 131, Mismatches: 13, Indels: 5
0.88 0.09 0.03
Matches are distributed among these distances:
136 44 0.34
137 1 0.01
138 84 0.64
139 2 0.02
ACGTcount: A:0.41, C:0.07, G:0.05, T:0.47
Consensus pattern (138 bp):
AATTATATATTTTTCCAAAAGAATATTAATTTCCTTATATTTTATATTTTGATTGAAATTAATTA
ATATAACTGTTAATATTAATAAATTCAGTAAATATATACAATTAATATTCCATATGAAACAAATT
CATATATT
Found at i:7180253 original size:10 final size:10
Alignment explanation
Indices: 7180238--7180279 Score: 50
Period size: 10 Copynumber: 4.3 Consensus size: 10
7180228 TTTGCAAGTT
7180238 TTGAGCTAAA
1 TTGAGCTAAA
* *
7180248 TTGAGCTGAT
1 TTGAGCTAAA
*
7180258 TTGAGCT-CA
1 TTGAGCTAAA
7180267 TTGAGCTAAA
1 TTGAGCTAAA
7180277 TTG
1 TTG
7180280 GAAGTTAATT
Statistics
Matches: 26, Mismatches: 5, Indels: 2
0.79 0.15 0.06
Matches are distributed among these distances:
9 7 0.27
10 19 0.73
ACGTcount: A:0.29, C:0.12, G:0.24, T:0.36
Consensus pattern (10 bp):
TTGAGCTAAA
Found at i:7181948 original size:17 final size:17
Alignment explanation
Indices: 7181909--7181951 Score: 52
Period size: 18 Copynumber: 2.5 Consensus size: 17
7181899 AAACCAAAAG
*
7181909 GAAAAATAAAAAAGTTA
1 GAAAAATAAAAAAGTAA
7181926 GTAAAAATAAGAAAA-TAA
1 G-AAAAATAA-AAAAGTAA
7181944 GAAAAATA
1 GAAAAATA
7181952 TTTATACTTT
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
17 8 0.35
18 11 0.48
19 4 0.17
ACGTcount: A:0.72, C:0.00, G:0.12, T:0.16
Consensus pattern (17 bp):
GAAAAATAAAAAAGTAA
Found at i:7183379 original size:19 final size:20
Alignment explanation
Indices: 7183349--7183386 Score: 60
Period size: 19 Copynumber: 1.9 Consensus size: 20
7183339 CTTTTTATTT
*
7183349 AATTTAAACTAAAATATAAA
1 AATTTAAACTAAAACATAAA
7183369 AATTT-AACTAAAACATAA
1 AATTTAAACTAAAACATAA
7183387 TAAAAGTGCT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 12 0.71
20 5 0.29
ACGTcount: A:0.63, C:0.08, G:0.00, T:0.29
Consensus pattern (20 bp):
AATTTAAACTAAAACATAAA
Found at i:7193070 original size:18 final size:18
Alignment explanation
Indices: 7193049--7193083 Score: 54
Period size: 18 Copynumber: 1.9 Consensus size: 18
7193039 TTTTTCTTTT
7193049 TCAATTT-TTTTCTCAATC
1 TCAATTTCTTTT-TCAATC
7193067 TCAATTTCTTTTTCAAT
1 TCAATTTCTTTTTCAAT
7193084 TTTCTTTTCT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
18 12 0.75
19 4 0.25
ACGTcount: A:0.23, C:0.20, G:0.00, T:0.57
Consensus pattern (18 bp):
TCAATTTCTTTTTCAATC
Found at i:7194082 original size:16 final size:17
Alignment explanation
Indices: 7194042--7194082 Score: 66
Period size: 16 Copynumber: 2.5 Consensus size: 17
7194032 GTACAAACTC
7194042 TTTTTTTTATGCACGAA
1 TTTTTTTTATGCACGAA
*
7194059 TTTTTTTT-TGCGCGAA
1 TTTTTTTTATGCACGAA
7194075 TTTTTTTT
1 TTTTTTTT
7194083 CTTTTTTTTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
16 15 0.65
17 8 0.35
ACGTcount: A:0.15, C:0.10, G:0.12, T:0.63
Consensus pattern (17 bp):
TTTTTTTTATGCACGAA
Found at i:7209389 original size:52 final size:49
Alignment explanation
Indices: 7209301--7209404 Score: 136
Period size: 52 Copynumber: 2.1 Consensus size: 49
7209291 TCCTCTAGAG
* * * *
7209301 AACATATGGAAAGCATTAAACATGTTATGTTCTTTCCAAAAAAGAATTAT
1 AACATATGGAAAGCATAAAAAATGTTATATGCTTTCC-AAAAAGAATTAT
*
7209351 AACATATGGAAAGTACTAAAAAAATGTTATATGCTTTCCAAAAAGAATTAT
1 AACATATGGAAAGCA-T-AAAAAATGTTATATGCTTTCCAAAAAGAATTAT
7209402 AAC
1 AAC
7209405 TACCATGTTT
Statistics
Matches: 47, Mismatches: 5, Indels: 3
0.85 0.09 0.05
Matches are distributed among these distances:
50 14 0.30
51 16 0.34
52 17 0.36
ACGTcount: A:0.47, C:0.12, G:0.12, T:0.30
Consensus pattern (49 bp):
AACATATGGAAAGCATAAAAAATGTTATATGCTTTCCAAAAAGAATTAT
Found at i:7210440 original size:19 final size:19
Alignment explanation
Indices: 7210416--7210463 Score: 78
Period size: 19 Copynumber: 2.5 Consensus size: 19
7210406 TTCTTAGTAC
*
7210416 TTTATTACAATTCAGTTTG
1 TTTATTACAATTCAGTTTA
7210435 TTTATTACAATTCAGTTTA
1 TTTATTACAATTCAGTTTA
7210454 TTTATATACA
1 TTTAT-TACA
7210464 TAGAAAAAGA
Statistics
Matches: 27, Mismatches: 1, Indels: 1
0.93 0.03 0.03
Matches are distributed among these distances:
19 23 0.85
20 4 0.15
ACGTcount: A:0.31, C:0.10, G:0.06, T:0.52
Consensus pattern (19 bp):
TTTATTACAATTCAGTTTA
Found at i:7220643 original size:20 final size:20
Alignment explanation
Indices: 7220620--7220673 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
7220610 AGTTTTTCCC
*
7220620 AGCTCGATTTAGCTCATATG
1 AGCTCAATTTAGCTCATATG
* ** *
7220640 AGCTTAATTTAGCTTGTTTG
1 AGCTCAATTTAGCTCATATG
7220660 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
7220674 TACTTTAGCT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.17, G:0.19, T:0.41
Consensus pattern (20 bp):
AGCTCAATTTAGCTCATATG
Found at i:7220665 original size:30 final size:30
Alignment explanation
Indices: 7220620--7220693 Score: 89
Period size: 30 Copynumber: 2.5 Consensus size: 30
7220610 AGTTTTTCCC
7220620 AGCTCGATTT-AGCTCATA-TGAGCTTAATTT
1 AGCTCG-TTTGAGCTCA-ATTGAGCTTAATTT
* * *
7220650 AGCTTGTTTGAGCTCAATTTAGCTTACTTT
1 AGCTCGTTTGAGCTCAATTGAGCTTAATTT
7220680 AGCTCGTTTGAGCT
1 AGCTCGTTTGAGCT
7220694 TGGCTTAAGT
Statistics
Matches: 38, Mismatches: 4, Indels: 4
0.83 0.09 0.09
Matches are distributed among these distances:
29 4 0.11
30 34 0.89
ACGTcount: A:0.22, C:0.18, G:0.19, T:0.42
Consensus pattern (30 bp):
AGCTCGTTTGAGCTCAATTGAGCTTAATTT
Found at i:7220683 original size:20 final size:20
Alignment explanation
Indices: 7220620--7220684 Score: 62
Period size: 20 Copynumber: 3.2 Consensus size: 20
7220610 AGTTTTTCCC
* *
7220620 AGCTCGATTTAGC-TCATATG
1 AGCTCAATTTAGCTTC-TTTG
* *
7220640 AGCTTAATTTAGCTTGTTTG
1 AGCTCAATTTAGCTTCTTTG
7220660 AGCTCAATTTAGCTTACTTT-
1 AGCTCAATTTAGCTT-CTTTG
7220680 AGCTC
1 AGCTC
7220685 GTTTGAGCTT
Statistics
Matches: 37, Mismatches: 6, Indels: 4
0.79 0.13 0.09
Matches are distributed among these distances:
20 33 0.89
21 4 0.11
ACGTcount: A:0.23, C:0.18, G:0.17, T:0.42
Consensus pattern (20 bp):
AGCTCAATTTAGCTTCTTTG
Found at i:7226021 original size:20 final size:20
Alignment explanation
Indices: 7225998--7226051 Score: 63
Period size: 20 Copynumber: 2.7 Consensus size: 20
7225988 AGTTTTTCCC
*
7225998 AGCTCGATTTAGCTCACATG
1 AGCTCAATTTAGCTCACATG
* ***
7226018 AGCTTAATTTAGCTCGTTTG
1 AGCTCAATTTAGCTCACATG
7226038 AGCTCAATTTAGCT
1 AGCTCAATTTAGCT
7226052 TACTTAGCTT
Statistics
Matches: 28, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 28 1.00
ACGTcount: A:0.24, C:0.20, G:0.19, T:0.37
Consensus pattern (20 bp):
AGCTCAATTTAGCTCACATG
Found at i:7230578 original size:13 final size:13
Alignment explanation
Indices: 7230560--7230584 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
7230550 GTCCTCAAGA
7230560 AAATAATGTATGC
1 AAATAATGTATGC
7230573 AAATAATGTATG
1 AAATAATGTATG
7230585 AATATGCATG
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:0.48, C:0.04, G:0.16, T:0.32
Consensus pattern (13 bp):
AAATAATGTATGC
Found at i:7230636 original size:25 final size:25
Alignment explanation
Indices: 7230602--7230651 Score: 91
Period size: 25 Copynumber: 2.0 Consensus size: 25
7230592 ATGAATGCAA
*
7230602 GGAATTGCCAAAACAATCAATCACC
1 GGAATCGCCAAAACAATCAATCACC
7230627 GGAATCGCCAAAACAATCAATCACC
1 GGAATCGCCAAAACAATCAATCACC
7230652 AATTATACTG
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.44, C:0.30, G:0.12, T:0.14
Consensus pattern (25 bp):
GGAATCGCCAAAACAATCAATCACC
Found at i:7240036 original size:41 final size:41
Alignment explanation
Indices: 7239975--7240116 Score: 223
Period size: 41 Copynumber: 3.5 Consensus size: 41
7239965 AATGAGATAA
*
7239975 TTCA-ACTTTACGTCTAGCAGGCTTGATGCTGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
*
7240015 TTCAGACTTTATGTCTAGCAGGCTTGATGCCGGTGAAATGT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
* * *
7240056 TTCAGACTTTACGTCTAGTAGGCTTGATGCCGATGAAATAT
1 TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
*
7240097 TTCACACTTTACGTCTAGCA
1 TTCAGACTTTACGTCTAGCA
7240117 AGCTAATTGC
Statistics
Matches: 93, Mismatches: 8, Indels: 1
0.91 0.08 0.01
Matches are distributed among these distances:
40 4 0.04
41 89 0.96
ACGTcount: A:0.24, C:0.19, G:0.23, T:0.35
Consensus pattern (41 bp):
TTCAGACTTTACGTCTAGCAGGCTTGATGCCGGTGAAATGT
Found at i:7240161 original size:82 final size:82
Alignment explanation
Indices: 7239979--7240161 Score: 188
Period size: 82 Copynumber: 2.2 Consensus size: 82
7239969 AGATAATTCA
* * * * * * * * *
7239979 ACTTTACGTCTAGCAGGCTTGATGCTGGTGAAATGTTTCAGACTTTATGTCTAGCAGGCTTGATG
1 ACTTTAAGCCTAGCAGGCTTGATGCCGATGAAATATTTCACACTTTACGTCTAGCAAGCTTAATG
**
7240044 CCGGTGAAATGTTTCAG
66 CCGGTGAAATGAATCAG
* * *
7240061 ACTTTACGTCTAGTAGGCTTGATGCCGATGAAATATTTCACACTTTACGTCTAGCAAGC-TAATT
1 ACTTTAAGCCTAGCAGGCTTGATGCCGATGAAATATTTCACACTTTACGTCTAGCAAGCTTAA-T
* *
7240125 GCCGGTGTATTGAATCAG
65 GCCGGTGAAATGAATCAG
**
7240143 GTTTTAAGCCTAGCAGGCT
1 ACTTTAAGCCTAGCAGGCT
7240162 AAGTGCCGGT
Statistics
Matches: 83, Mismatches: 17, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
81 2 0.02
82 81 0.98
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (82 bp):
ACTTTAAGCCTAGCAGGCTTGATGCCGATGAAATATTTCACACTTTACGTCTAGCAAGCTTAATG
CCGGTGAAATGAATCAG
Found at i:7240623 original size:70 final size:69
Alignment explanation
Indices: 7240549--7240684 Score: 159
Period size: 70 Copynumber: 1.9 Consensus size: 69
7240539 TGGATATATG
* *
7240549 TATGTGGTAAA-TACATGTACATATTTGGTTATAATATTTGTTAAGC-ATATGTATATATGCATT
1 TATGT-GTAAAGTACATATAC--ATTTGGTTATAATATTTGTCAAGCAATATGTATATATGCATT
7240612 CGGCTAA
63 CGGCTAA
* ** * *
7240619 TATGTTTAAAGTGTATATACATTTGGTTCTAATATTTGTCATGCATATATGTATATATGCATTCG
1 TATGTGTAAAGTACATATACATTTGGTTATAATATTTGTCAAGCA-ATATGTATATATGCATTCG
7240684 G
65 G
7240685 GGATTAATGT
Statistics
Matches: 56, Mismatches: 7, Indels: 6
0.81 0.10 0.09
Matches are distributed among these distances:
68 21 0.38
69 4 0.07
70 31 0.55
ACGTcount: A:0.31, C:0.09, G:0.17, T:0.43
Consensus pattern (69 bp):
TATGTGTAAAGTACATATACATTTGGTTATAATATTTGTCAAGCAATATGTATATATGCATTCGG
CTAA
Found at i:7256514 original size:2 final size:2
Alignment explanation
Indices: 7256507--7256545 Score: 78
Period size: 2 Copynumber: 19.5 Consensus size: 2
7256497 TCGAAAATAT
7256507 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
1 GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA GA G
7256546 GCAAAACCTG
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 37 1.00
ACGTcount: A:0.49, C:0.00, G:0.51, T:0.00
Consensus pattern (2 bp):
GA
Found at i:7258521 original size:22 final size:22
Alignment explanation
Indices: 7258495--7258539 Score: 56
Period size: 22 Copynumber: 2.0 Consensus size: 22
7258485 ATTATATGTA
7258495 TTAATTCATAATACAA-TTAATT
1 TTAATTCAT-ATACAATTTAATT
* *
7258517 TTAATTTATATCCAATTTAATT
1 TTAATTCATATACAATTTAATT
7258539 T
1 T
7258540 GGGTTAATAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
21 5 0.25
22 15 0.75
ACGTcount: A:0.40, C:0.09, G:0.00, T:0.51
Consensus pattern (22 bp):
TTAATTCATATACAATTTAATT
Found at i:7262822 original size:22 final size:20
Alignment explanation
Indices: 7262779--7262817 Score: 69
Period size: 20 Copynumber: 1.9 Consensus size: 20
7262769 CAATTTAAAA
7262779 TATAAAAATTTATTAATATG
1 TATAAAAATTTATTAATATG
*
7262799 TATATAAATTTATTAATAT
1 TATAAAAATTTATTAATAT
7262818 ATGTAAAAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.49, C:0.00, G:0.03, T:0.49
Consensus pattern (20 bp):
TATAAAAATTTATTAATATG
Found at i:7264205 original size:46 final size:46
Alignment explanation
Indices: 7264133--7264226 Score: 170
Period size: 46 Copynumber: 2.0 Consensus size: 46
7264123 AAAATACTAT
*
7264133 AACTCAGTATGGTTTCCTTCACTGAAATACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
*
7264179 AACTCAGTATGGTTTCCTTCATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
7264225 AA
1 AA
7264227 TTTGCCATGG
Statistics
Matches: 46, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 46 1.00
ACGTcount: A:0.30, C:0.28, G:0.09, T:0.34
Consensus pattern (46 bp):
AACTCAGTATGGTTTCCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:7266491 original size:34 final size:34
Alignment explanation
Indices: 7266451--7266552 Score: 98
Period size: 34 Copynumber: 3.2 Consensus size: 34
7266441 TTACTCATTC
7266451 ACTTACTTGTTTACTTAGGCAACTCATAATTAGG
1 ACTTACTTGTTTACTTAGGCAACTCATAATTAGG
* *
7266485 ACTTACTT-TTCT-CTT--G---CTGA-AATGT-TG
1 ACTTACTTGTT-TACTTAGGCAACTCATAAT-TAGG
7266512 A-TTACTTGTTTACTTAGGCAACTCATAATTAGG
1 ACTTACTTGTTTACTTAGGCAACTCATAATTAGG
7266545 ACTTACTT
1 ACTTACTT
7266553 TTCTCTTGCT
Statistics
Matches: 52, Mismatches: 4, Indels: 24
0.65 0.05 0.30
Matches are distributed among these distances:
26 7 0.13
27 10 0.19
28 4 0.08
29 1 0.02
31 1 0.02
32 4 0.08
33 10 0.19
34 15 0.29
ACGTcount: A:0.26, C:0.18, G:0.14, T:0.42
Consensus pattern (34 bp):
ACTTACTTGTTTACTTAGGCAACTCATAATTAGG
Found at i:7266519 original size:60 final size:60
Alignment explanation
Indices: 7266453--7266574 Score: 244
Period size: 60 Copynumber: 2.0 Consensus size: 60
7266443 ACTCATTCAC
7266453 TTACTTGTTTACTTAGGCAACTCATAATTAGGACTTACTTTTCTCTTGCTGAAATGTTGA
1 TTACTTGTTTACTTAGGCAACTCATAATTAGGACTTACTTTTCTCTTGCTGAAATGTTGA
7266513 TTACTTGTTTACTTAGGCAACTCATAATTAGGACTTACTTTTCTCTTGCTGAAATGTTGA
1 TTACTTGTTTACTTAGGCAACTCATAATTAGGACTTACTTTTCTCTTGCTGAAATGTTGA
7266573 TT
1 TT
7266575 CTCAATGGGT
Statistics
Matches: 62, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
60 62 1.00
ACGTcount: A:0.25, C:0.16, G:0.15, T:0.44
Consensus pattern (60 bp):
TTACTTGTTTACTTAGGCAACTCATAATTAGGACTTACTTTTCTCTTGCTGAAATGTTGA
Found at i:7266888 original size:50 final size:50
Alignment explanation
Indices: 7266721--7267016 Score: 263
Period size: 50 Copynumber: 5.8 Consensus size: 50
7266711 GATAATAACA
* * ** * * *
7266721 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGAGATGTTTCATGT-AC
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * * * * * * ** * *
7266770 TACCTATGCCATATCCCAGATATTGTTTTACATGGGAGTTCTCATATCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* * **
7266820 TGCCCATG-CATGTCCCAGACATGGTCTTACGGGGGACCTCTCATCTCAG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* *
7266869 TGCCAACGCCATGTCCCAGACATGATCTTACATGGGACCTCTCATCTCGG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
* *
7266919 TGCCAACGCCATGTCCCAGACCTGGCCTTACATGGGACCTCTCATGATCTCAATG
1 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTC---ATCTC-A-G
* * *
7266974 ATGCCAATGCCATGTCCCAAACATGGTCTTACATGGGATCTCT
1 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
7267017 TTACCCATAT
Statistics
Matches: 198, Mismatches: 41, Indels: 9
0.80 0.17 0.04
Matches are distributed among these distances:
49 72 0.36
50 83 0.42
53 5 0.03
55 1 0.01
56 37 0.19
ACGTcount: A:0.23, C:0.29, G:0.20, T:0.27
Consensus pattern (50 bp):
TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCATCTCAG
Found at i:7267006 original size:106 final size:99
Alignment explanation
Indices: 7266797--7267016 Score: 260
Period size: 106 Copynumber: 2.2 Consensus size: 99
7266787 AGATATTGTT
** * * * *
7266797 TTACATGGGAGTTCTCATATCGGTGCCCATGCATGTCCCAGACATGGTCTTACGGGGGACCTCTC
1 TTACATGGGACCTCTCATATCGGTGCCAACGCATGTCCCAGACATGGCCTTACAGGGGACCTCTC
*
7266862 ATCTCAGTGCCAACGCCATGTCCCAGACATGATC
66 ATCTCAGTGCCAACGCCATGTCCCAAACATGATC
* * *
7266896 TTACATGGGACCTCTCATCTCGGTGCCAACGCCATGTCCCAGACCTGGCCTTACATGGGACCTCT
1 TTACATGGGACCTCTCATATCGGTGCCAACG-CATGTCCCAGACATGGCCTTACAGGGGACCTCT
* *
7266961 CATGATCTCAATGATGCCAATGCCATGTCCCAAACATGGTC
65 C---ATCTC-A-G-TGCCAACGCCATGTCCCAAACATGATC
*
7267002 TTACATGGGATCTCT
1 TTACATGGGACCTCT
7267017 TTACCCATAT
Statistics
Matches: 101, Mismatches: 13, Indels: 7
0.83 0.11 0.06
Matches are distributed among these distances:
99 26 0.26
100 30 0.30
103 5 0.05
104 1 0.01
105 1 0.01
106 38 0.38
ACGTcount: A:0.22, C:0.31, G:0.21, T:0.26
Consensus pattern (99 bp):
TTACATGGGACCTCTCATATCGGTGCCAACGCATGTCCCAGACATGGCCTTACAGGGGACCTCTC
ATCTCAGTGCCAACGCCATGTCCCAAACATGATC
Found at i:7268760 original size:13 final size:13
Alignment explanation
Indices: 7268742--7268769 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
7268732 TCTGAGGATG
7268742 AAAAGCTGTACTA
1 AAAAGCTGTACTA
7268755 AAAAGCTGTACTA
1 AAAAGCTGTACTA
7268768 AA
1 AA
7268770 TTTGAACTTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.50, C:0.14, G:0.14, T:0.21
Consensus pattern (13 bp):
AAAAGCTGTACTA
Found at i:7274237 original size:46 final size:47
Alignment explanation
Indices: 7274133--7274271 Score: 214
Period size: 46 Copynumber: 3.0 Consensus size: 47
7274123 AAAATACTAT
* *
7274133 AACTCAGTATGG-TTTCTTTCACTGAAATACCATACCTA-TTTTCAC
1 AACTCAGTATGGTTTTCCTTCACTGAAACACCATACCTACTTTTCAC
* *
7274178 AACTAAGTATGGTTTTCCTT-ATTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCCTTCACTGAAACACCATACCTACTTTTCAC
7274224 AACTCAGTATGGTTTT-CTTCACTGAAACACCATACCTACTTTTCAC
1 AACTCAGTATGGTTTTCCTTCACTGAAACACCATACCTACTTTTCAC
7274270 AA
1 AA
7274272 TTTGTCATGA
Statistics
Matches: 85, Mismatches: 6, Indels: 5
0.89 0.06 0.05
Matches are distributed among these distances:
45 30 0.35
46 55 0.65
ACGTcount: A:0.30, C:0.25, G:0.09, T:0.36
Consensus pattern (47 bp):
AACTCAGTATGGTTTTCCTTCACTGAAACACCATACCTACTTTTCAC
Found at i:7283387 original size:21 final size:20
Alignment explanation
Indices: 7283358--7283396 Score: 60
Period size: 21 Copynumber: 1.9 Consensus size: 20
7283348 ATCTTCCAAG
7283358 TTTATAGAATTATCAGAATT
1 TTTATAGAATTATCAGAATT
*
7283378 TTTATCAGAATTATTAGAA
1 TTTAT-AGAATTATCAGAA
7283397 CTACTATTAT
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
20 5 0.29
21 12 0.71
ACGTcount: A:0.41, C:0.05, G:0.10, T:0.44
Consensus pattern (20 bp):
TTTATAGAATTATCAGAATT
Found at i:7283465 original size:24 final size:24
Alignment explanation
Indices: 7283433--7283481 Score: 98
Period size: 24 Copynumber: 2.0 Consensus size: 24
7283423 TAACATATAA
7283433 TGATAATTAAATAATGCAAATAGG
1 TGATAATTAAATAATGCAAATAGG
7283457 TGATAATTAAATAATGCAAATAGG
1 TGATAATTAAATAATGCAAATAGG
7283481 T
1 T
7283482 CTTTATGTTT
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 25 1.00
ACGTcount: A:0.49, C:0.04, G:0.16, T:0.31
Consensus pattern (24 bp):
TGATAATTAAATAATGCAAATAGG
Found at i:7285345 original size:19 final size:19
Alignment explanation
Indices: 7285321--7285369 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
7285311 TCAAATTTTG
*
7285321 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
7285340 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
*
7285359 -TAATATTTATA
1 AAAATATTTATA
7285370 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:7285755 original size:21 final size:21
Alignment explanation
Indices: 7285731--7285770 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7285721 ACCTTTTCTA
7285731 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGTCAAAACTATC
*
7285752 AAGTTAAAAGTCAAGACTA
1 AAGTTAAAAGTCAAAACTA
7285771 CATTATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGTCAAAACTATC
Found at i:7298027 original size:19 final size:19
Alignment explanation
Indices: 7298003--7298051 Score: 57
Period size: 18 Copynumber: 2.6 Consensus size: 19
7297993 TCAAATTTTG
*
7298003 AAAATAATTTTTA-AAATTC
1 AAAAT-ATTTATAGAAATTC
7298022 AAAATATTTATAGAAATTC
1 AAAATATTTATAGAAATTC
*
7298041 -TAATATTTATA
1 AAAATATTTATA
7298052 TTTTTAAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 3
0.84 0.06 0.09
Matches are distributed among these distances:
18 16 0.59
19 11 0.41
ACGTcount: A:0.51, C:0.04, G:0.02, T:0.43
Consensus pattern (19 bp):
AAAATATTTATAGAAATTC
Found at i:7298437 original size:21 final size:21
Alignment explanation
Indices: 7298413--7298452 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
7298403 ACCTTTTCTA
7298413 AAGTTAAAAGTCAAAACTATC
1 AAGTTAAAAGTCAAAACTATC
*
7298434 AAGTTAAAAGTCAAGACTA
1 AAGTTAAAAGTCAAAACTA
7298453 CATTATTTTG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.53, C:0.12, G:0.12, T:0.23
Consensus pattern (21 bp):
AAGTTAAAAGTCAAAACTATC
Found at i:7310667 original size:47 final size:49
Alignment explanation
Indices: 7310588--7310723 Score: 179
Period size: 51 Copynumber: 2.8 Consensus size: 49
7310578 AGTGAAAGTG
*
7310588 ATGGTCACGTGTGTAGTACTATGTGCAGGCTAC-ATGTACCGGAATG--
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTACCGGAATGTA
* * * *
7310634 ATAGGTCGCATGTGTAGTACTATGTGCAAGCTACTACGTGTATCGGATTGTA
1 AT-GGTCACATGTGTAGTACTATGTGCAGGCTACTA--TGTACCGGAATGTA
7310686 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGT
1 ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGT
7310724 GAACTGAACA
Statistics
Matches: 77, Mismatches: 7, Indels: 9
0.83 0.08 0.10
Matches are distributed among these distances:
46 2 0.03
47 28 0.36
48 1 0.01
49 3 0.04
50 10 0.13
51 31 0.40
52 2 0.03
ACGTcount: A:0.24, C:0.16, G:0.28, T:0.32
Consensus pattern (49 bp):
ATGGTCACATGTGTAGTACTATGTGCAGGCTACTATGTACCGGAATGTA
Found at i:7310786 original size:45 final size:45
Alignment explanation
Indices: 7310726--7310817 Score: 139
Period size: 45 Copynumber: 2.0 Consensus size: 45
7310716 TACTATGTGA
* * *
7310726 ACTGAACATCATTGATTAGTAAGGTGGTTGCTATGTGCTGATTCC
1 ACTGAACATCATTGATTAATAAGGTGGTTGCTACGTGCTGAATCC
* *
7310771 ACTGGACATCGTTGATTAATAAGGTGGTTGCTACGTGCTGAATCC
1 ACTGAACATCATTGATTAATAAGGTGGTTGCTACGTGCTGAATCC
7310816 AC
1 AC
7310818 CGAGTATCTG
Statistics
Matches: 42, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.25, C:0.17, G:0.25, T:0.33
Consensus pattern (45 bp):
ACTGAACATCATTGATTAATAAGGTGGTTGCTACGTGCTGAATCC
Found at i:7316593 original size:16 final size:17
Alignment explanation
Indices: 7316562--7316594 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
7316552 TAAGAAGGTC
*
7316562 CAAAATATGTATTAATT
1 CAAAATATGAATTAATT
7316579 CAAAATAT-AATTAATT
1 CAAAATATGAATTAATT
7316595 TTAATCTATA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
16 7 0.47
17 8 0.53
ACGTcount: A:0.52, C:0.06, G:0.03, T:0.39
Consensus pattern (17 bp):
CAAAATATGAATTAATT
Found at i:7320747 original size:46 final size:46
Alignment explanation
Indices: 7320694--7320794 Score: 114
Period size: 46 Copynumber: 2.2 Consensus size: 46
7320684 ATGCAAAAGT
**
7320694 TCAGAACCTAATCCTATATTCTTGAGTCCGCAACATATGAAGGAAC
1 TCAGAACCTAATCCTATATTCTCAAGTCCGCAACATATGAAGGAAC
* * * ** * *
7320740 TCAGAACCTATTCTTGTATTCTCAAGTGTGCAACATATGCAGGAGC
1 TCAGAACCTAATCCTATATTCTCAAGTCCGCAACATATGAAGGAAC
7320786 TCA-AACCTA
1 TCAGAACCTA
7320795 GGTAAACTTA
Statistics
Matches: 46, Mismatches: 9, Indels: 1
0.82 0.16 0.02
Matches are distributed among these distances:
45 6 0.13
46 40 0.87
ACGTcount: A:0.33, C:0.24, G:0.16, T:0.28
Consensus pattern (46 bp):
TCAGAACCTAATCCTATATTCTCAAGTCCGCAACATATGAAGGAAC
Found at i:7321671 original size:26 final size:26
Alignment explanation
Indices: 7321635--7321698 Score: 92
Period size: 26 Copynumber: 2.5 Consensus size: 26
7321625 CGACCCACAA
* * *
7321635 CTCGTATGAGCAGGCCTATTCTATAG
1 CTCGTGTGAGCAGGCCCATTCCATAG
7321661 CTCGTGTGAGCAGGCCCATTCCATAG
1 CTCGTGTGAGCAGGCCCATTCCATAG
*
7321687 CTCATGTGAGCA
1 CTCGTGTGAGCA
7321699 ATAATGCAAA
Statistics
Matches: 34, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
26 34 1.00
ACGTcount: A:0.22, C:0.27, G:0.25, T:0.27
Consensus pattern (26 bp):
CTCGTGTGAGCAGGCCCATTCCATAG
Found at i:7339550 original size:16 final size:15
Alignment explanation
Indices: 7339525--7339558 Score: 50
Period size: 16 Copynumber: 2.2 Consensus size: 15
7339515 AAAGTTGATA
*
7339525 ATAATTAATATATATT
1 ATAATAAATATA-ATT
7339541 ATAATAAATATAATT
1 ATAATAAATATAATT
7339556 ATA
1 ATA
7339559 TACTAGTTAC
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
15 6 0.35
16 11 0.65
ACGTcount: A:0.56, C:0.00, G:0.00, T:0.44
Consensus pattern (15 bp):
ATAATAAATATAATT
Found at i:7339682 original size:29 final size:30
Alignment explanation
Indices: 7339624--7339682 Score: 75
Period size: 30 Copynumber: 2.0 Consensus size: 30
7339614 TGCCATTGAA
* * * *
7339624 AATATTTACCAAAAGAGACATCTAATTTTT
1 AATATTTACAAAAAGAGACAACCAAATTTT
7339654 AATATTTACAAAAAGA-ACAACCAAATTTT
1 AATATTTACAAAAAGAGACAACCAAATTTT
7339683 GCAAATAATT
Statistics
Matches: 25, Mismatches: 4, Indels: 1
0.83 0.13 0.03
Matches are distributed among these distances:
29 10 0.40
30 15 0.60
ACGTcount: A:0.49, C:0.14, G:0.05, T:0.32
Consensus pattern (30 bp):
AATATTTACAAAAAGAGACAACCAAATTTT
Found at i:7353151 original size:16 final size:15
Alignment explanation
Indices: 7353126--7353156 Score: 53
Period size: 16 Copynumber: 2.0 Consensus size: 15
7353116 GAGTGAAAGA
7353126 GAGAGAGAGATGTGT
1 GAGAGAGAGATGTGT
7353141 GAGATGAGAGATGTGT
1 GAGA-GAGAGATGTGT
7353157 TGAATAAATA
Statistics
Matches: 15, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
15 4 0.27
16 11 0.73
ACGTcount: A:0.32, C:0.00, G:0.45, T:0.23
Consensus pattern (15 bp):
GAGAGAGAGATGTGT
Found at i:7360346 original size:28 final size:29
Alignment explanation
Indices: 7360286--7360347 Score: 74
Period size: 28 Copynumber: 2.2 Consensus size: 29
7360276 TTTATGAAAG
** * *
7360286 CTCTCTGTTTAGCTTTGCTTTGTACGAGT
1 CTCTCTGTTTAAATTTACTTTATACGAGT
7360315 -TCTCTGTTTAAATTTACTTTATACGA-T
1 CTCTCTGTTTAAATTTACTTTATACGAGT
7360342 CTCTCT
1 CTCTCT
7360348 ATTCAGATCT
Statistics
Matches: 28, Mismatches: 4, Indels: 3
0.80 0.11 0.09
Matches are distributed among these distances:
27 1 0.04
28 27 0.96
ACGTcount: A:0.16, C:0.21, G:0.13, T:0.50
Consensus pattern (29 bp):
CTCTCTGTTTAAATTTACTTTATACGAGT
Found at i:7368451 original size:20 final size:20
Alignment explanation
Indices: 7368426--7368476 Score: 66
Period size: 20 Copynumber: 2.5 Consensus size: 20
7368416 ATAGATGGAT
**
7368426 AACAGGGGCACTGATGTGCA
1 AACAGGGGCACAAATGTGCA
*
7368446 AACAGGGGCAAAAATGTGCA
1 AACAGGGGCACAAATGTGCA
*
7368466 AACAAGGGCAC
1 AACAGGGGCAC
7368477 CATAGTGCGA
Statistics
Matches: 26, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
20 26 1.00
ACGTcount: A:0.39, C:0.20, G:0.31, T:0.10
Consensus pattern (20 bp):
AACAGGGGCACAAATGTGCA
Found at i:7368484 original size:20 final size:20
Alignment explanation
Indices: 7368461--7368498 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
7368451 GGGCAAAAAT
*
7368461 GTGCAAACAAGGGCACCATA
1 GTGCAAACAAGGACACCATA
*
7368481 GTGCGAACAAGGACACCA
1 GTGCAAACAAGGACACCA
7368499 ATATGTATAC
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.39, C:0.26, G:0.26, T:0.08
Consensus pattern (20 bp):
GTGCAAACAAGGACACCATA
Found at i:7370725 original size:20 final size:20
Alignment explanation
Indices: 7370700--7370752 Score: 61
Period size: 20 Copynumber: 2.6 Consensus size: 20
7370690 ACATGCTAAT
* **
7370700 AGAGGCACCGAAGTTCATCC
1 AGAGGCACCGAAGTGCAAAC
* *
7370720 AGAGGCACCAAAGTGCAAAT
1 AGAGGCACCGAAGTGCAAAC
7370740 AGAGGCACCGAAG
1 AGAGGCACCGAAG
7370753 AGAAAACCTG
Statistics
Matches: 27, Mismatches: 6, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
20 27 1.00
ACGTcount: A:0.38, C:0.25, G:0.28, T:0.09
Consensus pattern (20 bp):
AGAGGCACCGAAGTGCAAAC
Found at i:7371009 original size:14 final size:14
Alignment explanation
Indices: 7370990--7371019 Score: 51
Period size: 14 Copynumber: 2.1 Consensus size: 14
7370980 TTAACCAGTT
*
7370990 AATATCATTAATTC
1 AATATCAATAATTC
7371004 AATATCAATAATTC
1 AATATCAATAATTC
7371018 AA
1 AA
7371020 CCAAAAATTA
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:0.50, C:0.13, G:0.00, T:0.37
Consensus pattern (14 bp):
AATATCAATAATTC
Found at i:7372406 original size:61 final size:61
Alignment explanation
Indices: 7372301--7372416 Score: 146
Period size: 61 Copynumber: 1.9 Consensus size: 61
7372291 CAGGCTGTCA
* * * *
7372301 TTTACATCCAGTACTCACCACAAAGATTTCCTTGTCTAGTGTTTTTCCATAAAGGTTTTCC
1 TTTACATCCAGTACTCACCACAAAGATTTCCTTATCAAGAGTTTTTCCAAAAAGGTTTTCC
**
7372362 TTTACATCCAGTACTTGCCACAAAGGCA-TTCC-TATCAAGAGTTTTTCCAAAAAGG
1 TTTACATCCAGTACTCACCACAAA-G-ATTTCCTTATCAAGAGTTTTTCCAAAAAGG
7372417 CGTCCTTAAC
Statistics
Matches: 47, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
61 41 0.87
62 5 0.11
63 1 0.02
ACGTcount: A:0.28, C:0.24, G:0.13, T:0.34
Consensus pattern (61 bp):
TTTACATCCAGTACTCACCACAAAGATTTCCTTATCAAGAGTTTTTCCAAAAAGGTTTTCC
Found at i:7372479 original size:31 final size:31
Alignment explanation
Indices: 7372412--7372479 Score: 82
Period size: 31 Copynumber: 2.2 Consensus size: 31
7372402 GTTTTTCCAA
* ** *
7372412 AAAGGCGTCCTTAACATTCAGTGCTCGCCAC
1 AAAGGCATCCTTAACATTCAGCACTAGCCAC
* *
7372443 GAAGGCATCCTTAACATTCAGCACTAGTCAC
1 AAAGGCATCCTTAACATTCAGCACTAGCCAC
7372474 AAAGGC
1 AAAGGC
7372480 TTTCCTATCA
Statistics
Matches: 30, Mismatches: 7, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.31, C:0.29, G:0.19, T:0.21
Consensus pattern (31 bp):
AAAGGCATCCTTAACATTCAGCACTAGCCAC
Found at i:7376396 original size:20 final size:20
Alignment explanation
Indices: 7376344--7376415 Score: 81
Period size: 20 Copynumber: 3.6 Consensus size: 20
7376334 TATGAACCAC
* *
7376344 TCCATTTACTTACTTACAAT
1 TCCATTTACTTACTTTCCAT
* **
7376364 TCCATATGTTTACTTTCCAT
1 TCCATTTACTTACTTTCCAT
*
7376384 TTCATTTACTTACTTTCCAT
1 TCCATTTACTTACTTTCCAT
*
7376404 TCCTTTTACTTA
1 TCCATTTACTTA
7376416 GCATAAGCTT
Statistics
Matches: 41, Mismatches: 11, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
20 41 1.00
ACGTcount: A:0.22, C:0.25, G:0.01, T:0.51
Consensus pattern (20 bp):
TCCATTTACTTACTTTCCAT
Found at i:7378912 original size:50 final size:51
Alignment explanation
Indices: 7378793--7378925 Score: 171
Period size: 51 Copynumber: 2.6 Consensus size: 51
7378783 GATACCGATT
*
7378793 CACATAGTAGCCTGCACATAGTACTACACACGTGATCGATGCTATCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGCGATCGATGCTATCTGGTA
* * * *
7378844 CGCATCGTAGCCTGCACATAGTACTACACATGCGATCTAT-C-ATTCTGGTA
1 CACATAGTAGCCTGCACATAGTACTACACACGCGATCGATGCTA-TCTGGTA
* * *
7378894 CACGTAGTAGCTTGCACATAATACTACACACG
1 CACATAGTAGCCTGCACATAGTACTACACACG
7378926 TGACCATCAC
Statistics
Matches: 70, Mismatches: 11, Indels: 3
0.83 0.13 0.04
Matches are distributed among these distances:
49 1 0.01
50 34 0.49
51 35 0.50
ACGTcount: A:0.29, C:0.27, G:0.18, T:0.26
Consensus pattern (51 bp):
CACATAGTAGCCTGCACATAGTACTACACACGCGATCGATGCTATCTGGTA
Found at i:7380257 original size:6 final size:6
Alignment explanation
Indices: 7380246--7380283 Score: 76
Period size: 6 Copynumber: 6.3 Consensus size: 6
7380236 GGTCGAAACC
7380246 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TT
1 TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TTTCCT TT
7380284 ACATCGATGC
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 32 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (6 bp):
TTTCCT
Found at i:7383561 original size:33 final size:33
Alignment explanation
Indices: 7383492--7383554 Score: 99
Period size: 33 Copynumber: 1.9 Consensus size: 33
7383482 GTTGTTCCCT
*
7383492 TTTGCCGAATATTACTTCTCCCCATTCATTGAG
1 TTTGCCAAATATTACTTCTCCCCATTCATTGAG
* *
7383525 TTTGCCAAATTTTACTTCTCTCCATTCATT
1 TTTGCCAAATATTACTTCTCCCCATTCATT
7383555 ACGTTTGTCG
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
33 27 1.00
ACGTcount: A:0.21, C:0.27, G:0.08, T:0.44
Consensus pattern (33 bp):
TTTGCCAAATATTACTTCTCCCCATTCATTGAG
Found at i:7392523 original size:42 final size:42
Alignment explanation
Indices: 7392461--7392546 Score: 111
Period size: 42 Copynumber: 2.0 Consensus size: 42
7392451 AAATTATTTT
* ** *
7392461 ATAAGTTTGGTATCAGTGAAGCTCCTTACATGAGCTTAAGTG
1 ATAAGTTTGGTATCAATGAAGCTCCCCACAAGAGCTTAAGTG
*
7392503 ATAAG-TTGTGTATCAATGAAGCTCCCCATAAGAGCTTAAGTG
1 ATAAGTTTG-GTATCAATGAAGCTCCCCACAAGAGCTTAAGTG
7392545 AT
1 AT
7392547 TGTGCTCCCT
Statistics
Matches: 38, Mismatches: 5, Indels: 2
0.84 0.11 0.04
Matches are distributed among these distances:
41 3 0.08
42 35 0.92
ACGTcount: A:0.31, C:0.15, G:0.22, T:0.31
Consensus pattern (42 bp):
ATAAGTTTGGTATCAATGAAGCTCCCCACAAGAGCTTAAGTG
Found at i:7400331 original size:12 final size:12
Alignment explanation
Indices: 7400310--7400339 Score: 51
Period size: 12 Copynumber: 2.5 Consensus size: 12
7400300 TACCAACACT
*
7400310 GTTGATTTGACA
1 GTTGACTTGACA
7400322 GTTGACTTGACA
1 GTTGACTTGACA
7400334 GTTGAC
1 GTTGAC
7400340 GGAGTCATCT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
12 17 1.00
ACGTcount: A:0.23, C:0.13, G:0.27, T:0.37
Consensus pattern (12 bp):
GTTGACTTGACA
Found at i:7414958 original size:23 final size:24
Alignment explanation
Indices: 7414927--7414971 Score: 74
Period size: 23 Copynumber: 1.9 Consensus size: 24
7414917 GTGTTATCGG
*
7414927 AAATGAAGAAAAGAACATACACGA
1 AAATGAAGAAAAGAAAATACACGA
7414951 AAAT-AAGAAAAGAAAATACAC
1 AAATGAAGAAAAGAAAATACAC
7414972 TGATGAAAGT
Statistics
Matches: 20, Mismatches: 1, Indels: 1
0.91 0.05 0.05
Matches are distributed among these distances:
23 16 0.80
24 4 0.20
ACGTcount: A:0.67, C:0.11, G:0.13, T:0.09
Consensus pattern (24 bp):
AAATGAAGAAAAGAAAATACACGA
Found at i:7416405 original size:29 final size:29
Alignment explanation
Indices: 7416338--7416408 Score: 108
Period size: 29 Copynumber: 2.4 Consensus size: 29
7416328 CTGCGATCAA
* *
7416338 AAAGAGAAGAAAAAGAGAGCAGCAGCTAG
1 AAAGAGAAGGAAAAGAAAGCAGCAGCTAG
7416367 AAAGAGAAGGAAAAGAAAGCAGCAGC-AGG
1 AAAGAGAAGGAAAAGAAAGCAGCAGCTA-G
7416396 AAAGAGAAGGAAA
1 AAAGAGAAGGAAA
7416409 GAAGCAAGGG
Statistics
Matches: 39, Mismatches: 2, Indels: 2
0.91 0.05 0.05
Matches are distributed among these distances:
28 1 0.03
29 38 0.97
ACGTcount: A:0.58, C:0.08, G:0.32, T:0.01
Consensus pattern (29 bp):
AAAGAGAAGGAAAAGAAAGCAGCAGCTAG
Found at i:7416647 original size:7 final size:7
Alignment explanation
Indices: 7416635--7416710 Score: 57
Period size: 7 Copynumber: 10.3 Consensus size: 7
7416625 TAAAATACAA
7416635 ATATATT
1 ATATATT
7416642 ATATATT
1 ATATATT
7416649 ATATATT
1 ATATATT
7416656 ATAATATTT
1 AT-ATA-TT
7416665 AATATAATT
1 -ATAT-ATT
*
7416674 AAAT-TT
1 ATATATT
7416680 ATATATT
1 ATATATT
*
7416687 AGATA-T
1 ATATATT
7416693 ATAATATT
1 AT-ATATT
*
7416701 TTATAATT
1 ATAT-ATT
7416709 AT
1 AT
7416711 TATAGATAAT
Statistics
Matches: 55, Mismatches: 6, Indels: 15
0.72 0.08 0.20
Matches are distributed among these distances:
6 7 0.13
7 27 0.49
8 12 0.22
9 6 0.11
10 3 0.05
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (7 bp):
ATATATT
Found at i:7416682 original size:38 final size:35
Alignment explanation
Indices: 7416640--7416709 Score: 104
Period size: 38 Copynumber: 1.9 Consensus size: 35
7416630 TACAAATATA
*
7416640 TTATATATTATATATTATAATATTTAATATAATTAAAT
1 TTATATATTAGATA-TATAATATTT--TATAATTAAAT
7416678 TTATATATTAGATATATAATATTTTATAATTA
1 TTATATATTAGATATATAATATTTTATAATTA
7416710 TTATAGATAA
Statistics
Matches: 31, Mismatches: 1, Indels: 3
0.89 0.03 0.09
Matches are distributed among these distances:
35 8 0.26
37 10 0.32
38 13 0.42
ACGTcount: A:0.46, C:0.00, G:0.01, T:0.53
Consensus pattern (35 bp):
TTATATATTAGATATATAATATTTTATAATTAAAT
Found at i:7426421 original size:29 final size:29
Alignment explanation
Indices: 7426374--7426447 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
7426364 AGCTTGATTG
* *
7426374 AAAGATTGAAGATTCAAGGATGACGGGAT
1 AAAGATTGAATATTTAAGGATGACGGGAT
* * *
7426403 AAATATTGAATATTTAAGGATGTCTGGAT
1 AAAGATTGAATATTTAAGGATGACGGGAT
7426432 AAAGATTGAATGATTT
1 AAAGATTGAAT-ATTT
7426448 TTTATATTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 34 0.89
30 4 0.11
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (29 bp):
AAAGATTGAATATTTAAGGATGACGGGAT
Found at i:7427841 original size:21 final size:22
Alignment explanation
Indices: 7427817--7427857 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7427807 CAAATTATTT
7427817 AATAT-ATAGAAATAAAGATTG
1 AATATAATAGAAATAAAGATTG
**
7427838 AATATAATAGACCTAAAGAT
1 AATATAATAGAAATAAAGAT
7427858 AAATTTAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.27
Consensus pattern (22 bp):
AATATAATAGAAATAAAGATTG
Found at i:7428122 original size:21 final size:21
Alignment explanation
Indices: 7428047--7428131 Score: 65
Period size: 21 Copynumber: 4.2 Consensus size: 21
7428037 CTGTTGGATA
*
7428047 AATTTTCTAAA-AGTTTTTATG
1 AATTTTTTAAATA-TTTTTATG
* *
7428068 AACTTTTTTTAA-ATTTGT-TG
1 AA-TTTTTTAAATATTTTTATG
*
7428088 -A-TTTTTAAATATTTTTATT
1 AATTTTTTAAATATTTTTATG
7428107 AATTTTTCTAAA-ATTTTTATG
1 AATTTTT-TAAATATTTTTATG
7428128 AATT
1 AATT
7428132 ACATGTGGAC
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
17 7 0.14
18 5 0.10
19 2 0.04
20 3 0.06
21 22 0.43
22 12 0.24
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.59
Consensus pattern (21 bp):
AATTTTTTAAATATTTTTATG
Found at i:7429220 original size:31 final size:31
Alignment explanation
Indices: 7429171--7429242 Score: 126
Period size: 31 Copynumber: 2.3 Consensus size: 31
7429161 ATTAATCATA
7429171 TTATTATTTATTTATGATTAATTATATAAAAT
1 TTATTA-TTATTTATGATTAATTATATAAAAT
*
7429203 TTATTATTATTTGTGATTAATTATATAAAAT
1 TTATTATTATTTATGATTAATTATATAAAAT
7429234 TTATTATTA
1 TTATTATTA
7429243 ATTGGTTAAG
Statistics
Matches: 39, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
31 33 0.85
32 6 0.15
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.57
Consensus pattern (31 bp):
TTATTATTATTTATGATTAATTATATAAAAT
Found at i:7434083 original size:29 final size:29
Alignment explanation
Indices: 7434036--7434109 Score: 94
Period size: 29 Copynumber: 2.5 Consensus size: 29
7434026 AGCTTGATTG
* *
7434036 AAAGATTGAAGATTCAAGGATGACGGGAT
1 AAAGATTGAATATTTAAGGATGACGGGAT
* * *
7434065 AAATATTGAATATTTAAGGATGTCTGGAT
1 AAAGATTGAATATTTAAGGATGACGGGAT
7434094 AAAGATTGAATGATTT
1 AAAGATTGAAT-ATTT
7434110 TTTATATTGT
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
29 34 0.89
30 4 0.11
ACGTcount: A:0.41, C:0.04, G:0.24, T:0.31
Consensus pattern (29 bp):
AAAGATTGAATATTTAAGGATGACGGGAT
Found at i:7434613 original size:229 final size:229
Alignment explanation
Indices: 7434212--7434661 Score: 900
Period size: 229 Copynumber: 2.0 Consensus size: 229
7434202 AGAAAAAATC
7434212 ACTAAATTTTAGCACTAAAAATATATATAAATACCTAGTGGCTCCAGCTAATTGAACACACATTT
1 ACTAAATTTTAGCACTAAAAATATATATAAATACCTAGTGGCTCCAGCTAATTGAACACACATTT
7434277 TGCCTTAAGCATTTAATAAATTCTTTTTTTCTCCCTTCACGCGTGTTCCATTCTACTATTTTAGT
66 TGCCTTAAGCATTTAATAAATTCTTTTTTTCTCCCTTCACGCGTGTTCCATTCTACTATTTTAGT
7434342 TCTTTTTCTTTTACTTTCAACTTTTTGATTATTTGTCTTCCAAGCCCTTCCTCTTTCCCACTTTT
131 TCTTTTTCTTTTACTTTCAACTTTTTGATTATTTGTCTTCCAAGCCCTTCCTCTTTCCCACTTTT
7434407 CACAATTCCATTTAAACTATTTATTTAAAATCTA
196 CACAATTCCATTTAAACTATTTATTTAAAATCTA
7434441 ACTAAATTTTAGCACTAAAAATATATATAAATACCTAGTGGCTCCAGCTAATTGAACACACATTT
1 ACTAAATTTTAGCACTAAAAATATATATAAATACCTAGTGGCTCCAGCTAATTGAACACACATTT
7434506 TGCCTTAAGCATTTAATAAATTCTTTTTTTCTCCCTTCACGCGTGTTCCATTCTACTATTTTAGT
66 TGCCTTAAGCATTTAATAAATTCTTTTTTTCTCCCTTCACGCGTGTTCCATTCTACTATTTTAGT
7434571 TCTTTTTCTTTTACTTTCAACTTTTTGATTATTTGTCTTCCAAGCCCTTCCTCTTTCCCACTTTT
131 TCTTTTTCTTTTACTTTCAACTTTTTGATTATTTGTCTTCCAAGCCCTTCCTCTTTCCCACTTTT
7434636 CACAATTCCATTTAAACTATTTATTT
196 CACAATTCCATTTAAACTATTTATTT
7434662 TCAAGCATGA
Statistics
Matches: 221, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
229 221 1.00
ACGTcount: A:0.26, C:0.22, G:0.07, T:0.44
Consensus pattern (229 bp):
ACTAAATTTTAGCACTAAAAATATATATAAATACCTAGTGGCTCCAGCTAATTGAACACACATTT
TGCCTTAAGCATTTAATAAATTCTTTTTTTCTCCCTTCACGCGTGTTCCATTCTACTATTTTAGT
TCTTTTTCTTTTACTTTCAACTTTTTGATTATTTGTCTTCCAAGCCCTTCCTCTTTCCCACTTTT
CACAATTCCATTTAAACTATTTATTTAAAATCTA
Found at i:7435732 original size:21 final size:22
Alignment explanation
Indices: 7435708--7435748 Score: 57
Period size: 22 Copynumber: 1.9 Consensus size: 22
7435698 CAAATTATTT
7435708 AATAT-ATAGAAATAAAGATTG
1 AATATAATAGAAATAAAGATTG
**
7435729 AATATAATAGACCTAAAGAT
1 AATATAATAGAAATAAAGAT
7435749 AAATTTAACC
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 5 0.29
22 12 0.71
ACGTcount: A:0.56, C:0.05, G:0.12, T:0.27
Consensus pattern (22 bp):
AATATAATAGAAATAAAGATTG
Found at i:7436013 original size:21 final size:21
Alignment explanation
Indices: 7435938--7436022 Score: 65
Period size: 21 Copynumber: 4.2 Consensus size: 21
7435928 CTGTTGGATA
*
7435938 AATTTTCTAAA-AGTTTTTATG
1 AATTTTTTAAATA-TTTTTATG
* *
7435959 AACTTTTTTTAA-ATTTGT-TG
1 AA-TTTTTTAAATATTTTTATG
*
7435979 -A-TTTTTAAATATTTTTATT
1 AATTTTTTAAATATTTTTATG
7435998 AATTTTTCTAAA-ATTTTTATG
1 AATTTTT-TAAATATTTTTATG
7436019 AATT
1 AATT
7436023 ACATGTGGAC
Statistics
Matches: 51, Mismatches: 7, Indels: 12
0.73 0.10 0.17
Matches are distributed among these distances:
17 7 0.14
18 5 0.10
19 2 0.04
20 3 0.06
21 22 0.43
22 12 0.24
ACGTcount: A:0.32, C:0.04, G:0.06, T:0.59
Consensus pattern (21 bp):
AATTTTTTAAATATTTTTATG
Found at i:7437111 original size:31 final size:31
Alignment explanation
Indices: 7437063--7437133 Score: 124
Period size: 31 Copynumber: 2.3 Consensus size: 31
7437053 TTAATCATAA
7437063 TATTATTTATTTATGATTAATTATATAAAATT
1 TATTA-TTATTTATGATTAATTATATAAAATT
*
7437095 TATTATTATTTGTGATTAATTATATAAAATT
1 TATTATTATTTATGATTAATTATATAAAATT
7437126 TATTATTA
1 TATTATTA
7437134 ATTGGTTAAG
Statistics
Matches: 38, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
31 33 0.87
32 5 0.13
ACGTcount: A:0.39, C:0.00, G:0.04, T:0.56
Consensus pattern (31 bp):
TATTATTATTTATGATTAATTATATAAAATT
Found at i:7440938 original size:41 final size:41
Alignment explanation
Indices: 7440893--7440984 Score: 123
Period size: 41 Copynumber: 2.2 Consensus size: 41
7440883 ACCGGTAATT
* **
7440893 AGCCTACTAGACTTATCGTCCGAATTATTTCACCGGCAC-AA
1 AGCCTACTAGACATAAAGTCCGAATTATTTCACCGGC-CTAA
* *
7440934 AGCCTGCTAGACATAAAGTCCGAATTATTTCACCGGCCTTA
1 AGCCTACTAGACATAAAGTCCGAATTATTTCACCGGCCTAA
7440975 AGCCTACTAG
1 AGCCTACTAG
7440985 GTTTTAAACC
Statistics
Matches: 44, Mismatches: 6, Indels: 2
0.85 0.12 0.04
Matches are distributed among these distances:
40 1 0.02
41 43 0.98
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.26
Consensus pattern (41 bp):
AGCCTACTAGACATAAAGTCCGAATTATTTCACCGGCCTAA
Found at i:7442870 original size:43 final size:43
Alignment explanation
Indices: 7442821--7443037 Score: 242
Period size: 43 Copynumber: 5.1 Consensus size: 43
7442811 TGTGAAAAAA
* * * * *
7442821 GCCGCTATAGAACATGACCTTTAGTGGCGCTTTTATAAAAAAT
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
* * *
7442864 GCCGCTAAAGAACATAACCTTTAACGGCGC-TTTACCCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTA-TCACAAAC
* * * *
7442907 ACCGCTAAAGAACATGA-CTTTCAGCGACAC-TTTATCACAAAT
1 GCCGCTAAAGAACATGACCTTT-AGCGGCGCTTTTATCACAAAC
* *
7442949 GCCGCTAAAGAACATGACCTTTAACGCCGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
* * *
7442992 ACCGCTAAAGAGCATGATCTTTAGCGGCGCTTTTATCACAAAC
1 GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
7443035 GCC
1 GCC
7443038 AATATAGAAA
Statistics
Matches: 144, Mismatches: 26, Indels: 8
0.81 0.15 0.04
Matches are distributed among these distances:
42 35 0.24
43 109 0.76
ACGTcount: A:0.33, C:0.27, G:0.16, T:0.24
Consensus pattern (43 bp):
GCCGCTAAAGAACATGACCTTTAGCGGCGCTTTTATCACAAAC
Found at i:7442969 original size:85 final size:86
Alignment explanation
Indices: 7442822--7443033 Score: 268
Period size: 85 Copynumber: 2.5 Consensus size: 86
7442812 GTGAAAAAAG
* * * * * * *
7442822 CCGCTATAGAACATGACCTTTAGTGGCGCTTTTATAAAAAATGCCGCTAAAGAACATAACCTTTA
1 CCGCTAAAGAACATGATCTTTAGCGACACTTTTATCACAAATGCCGCTAAAGAACATAACCTTTA
*
7442887 ACGGCGC-TTTACCCACAAACA
66 ACGCCGCTTTTA-CCACAAACA
*
7442908 CCGCTAAAGAACATGA-CTTTCAGCGACAC-TTTATCACAAATGCCGCTAAAGAACATGACCTTT
1 CCGCTAAAGAACATGATCTTT-AGCGACACTTTTATCACAAATGCCGCTAAAGAACATAACCTTT
*
7442971 AACGCCGCTTTTATCACAAACA
65 AACGCCGCTTTTACCACAAACA
* * *
7442993 CCGCTAAAGAGCATGATCTTTAGCGGCGCTTTTATCACAAA
1 CCGCTAAAGAACATGATCTTTAGCGACACTTTTATCACAAA
7443034 CGCCAATATA
Statistics
Matches: 110, Mismatches: 12, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
85 71 0.65
86 39 0.35
ACGTcount: A:0.34, C:0.26, G:0.15, T:0.25
Consensus pattern (86 bp):
CCGCTAAAGAACATGATCTTTAGCGACACTTTTATCACAAATGCCGCTAAAGAACATAACCTTTA
ACGCCGCTTTTACCACAAACA
Found at i:7443054 original size:128 final size:128
Alignment explanation
Indices: 7442821--7443055 Score: 283
Period size: 128 Copynumber: 1.8 Consensus size: 128
7442811 TGTGAAAAAA
* ** * **
7442821 GCCGCTATAGAACATGACCTTTAGTGGCGCTTTTATAAAAAATGCCGCTAAAGAACATAACCTTT
1 GCCGCTAAAGAACATGACCTTTAACGCCGCTTTTATAAAAAACACCGCTAAAGAACATAACCTTT
** * *
7442886 AACGGCGCTTTACCCACAAACACCGCTAAAGAACATGACTTTCAGCGACACTTTATCACAAAT
66 AACGGCGCTTTACCCACAAACACCAATAAAGAAAAAGACTTTCAGCGACACTTTATCACAAAT
* * * * *
7442949 GCCGCTAAAGAACATGACCTTTAACGCCGCTTTTATCACAAACACCGCTAAAGAGCATGATCTTT
1 GCCGCTAAAGAACATGACCTTTAACGCCGCTTTTATAAAAAACACCGCTAAAGAACATAACCTTT
* * * *
7443014 AGCGGCGCTTTTA-TCACAAACGCCAATATAGAAAAAGACTTT
66 AACGGCGC-TTTACCCACAAACACCAATAAAGAAAAAGACTTT
7443056 TAGCAACTTT
Statistics
Matches: 87, Mismatches: 19, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
128 83 0.95
129 4 0.05
ACGTcount: A:0.35, C:0.26, G:0.15, T:0.24
Consensus pattern (128 bp):
GCCGCTAAAGAACATGACCTTTAACGCCGCTTTTATAAAAAACACCGCTAAAGAACATAACCTTT
AACGGCGCTTTACCCACAAACACCAATAAAGAAAAAGACTTTCAGCGACACTTTATCACAAAT
Found at i:7447165 original size:7 final size:7
Alignment explanation
Indices: 7447153--7447301 Score: 68
Period size: 7 Copynumber: 21.3 Consensus size: 7
7447143 AACCCTTAGC
7447153 CCCTAAA
1 CCCTAAA
7447160 CCCTAAA
1 CCCTAAA
**
7447167 CTATAAA
1 CCCTAAA
***
7447174 ATTTAAA
1 CCCTAAA
7447181 CCCTAAA
1 CCCTAAA
* *
7447188 TCCTAAG
1 CCCTAAA
*
7447195 CAC-ATAA
1 CCCTA-AA
7447202 CCCATAAA
1 CCC-TAAA
**
7447210 CTATAAA
1 CCCTAAA
*
7447217 CACTAAA
1 CCCTAAA
*
7447224 CCATAAA
1 CCCTAAA
*
7447231 -CCTACA
1 CCCTAAA
7447237 CCCTAAA
1 CCCTAAA
*
7447244 CCGTAAA
1 CCCTAAA
**
7447251 TACTAAA
1 CCCTAAA
* *
7447258 CTCTTAA
1 CCCTAAA
*
7447265 CACTAAA
1 CCCTAAA
* *
7447272 TCATAAA
1 CCCTAAA
7447279 CCCTAAA
1 CCCTAAA
7447286 CCCTAAA
1 CCCTAAA
*
7447293 CCTTAAA
1 CCCTAAA
7447300 CC
1 CC
7447302 TCAAACTATA
Statistics
Matches: 101, Mismatches: 37, Indels: 8
0.69 0.25 0.05
Matches are distributed among these distances:
6 5 0.05
7 92 0.91
8 3 0.03
9 1 0.01
ACGTcount: A:0.47, C:0.31, G:0.01, T:0.21
Consensus pattern (7 bp):
CCCTAAA
Found at i:7447245 original size:13 final size:13
Alignment explanation
Indices: 7447177--7447329 Score: 58
Period size: 14 Copynumber: 11.1 Consensus size: 13
7447167 CTATAAAATT
*
7447177 TAAACCCTAAATCC
1 TAAACCATAAA-CC
* *
7447191 TAAGCACATAACCC
1 TAAAC-CATAAACC
*
7447205 ATAAACTATAAACAC
1 -TAAACCATAAAC-C
7447220 TAAACCATAAACC
1 TAAACCATAAACC
* *
7447233 TACACCCTAAACC
1 TAAACCATAAACC
*
7447246 GTAAA-TACTAAACTC
1 -TAAACCA-TAAAC-C
* *
7447261 TTAA-CACTAAATCA
1 TAAACCA-TAAA-CC
*
7447275 TAAACCCTAAACCC
1 TAAACCATAAA-CC
*
7447289 TAAACCTTAAACC
1 TAAACCATAAACC
* *
7447302 TCAAACTATAATCC
1 T-AAACCATAAACC
* *
7447316 TACACCTTAAACC
1 TAAACCATAAACC
7447329 T
1 T
7447330 TGAATATATA
Statistics
Matches: 103, Mismatches: 27, Indels: 19
0.69 0.18 0.13
Matches are distributed among these distances:
13 24 0.23
14 67 0.65
15 12 0.12
ACGTcount: A:0.46, C:0.31, G:0.01, T:0.22
Consensus pattern (13 bp):
TAAACCATAAACC
Found at i:7447291 original size:21 final size:20
Alignment explanation
Indices: 7447153--7447293 Score: 77
Period size: 21 Copynumber: 6.8 Consensus size: 20
7447143 AACCCTTAGC
7447153 CCCTAAACCCTAAACTATAAA
1 CCCTAAACCCTAAAC-ATAAA
*** * *
7447174 ATTTAAACCCTAAATCCTAAG
1 CCCTAAACCCTAAA-CATAAA
*
7447195 CAC-ATAACCCATAAACTATAAA
1 CCCTA-AACCC-TAAAC-ATAAA
* * * *
7447217 CACTAAACCATAAACCTACA
1 CCCTAAACCCTAAACATAAA
* *
7447237 CCCTAAACCGTAAATACTAAA
1 CCCTAAACCCTAAACA-TAAA
* * *
7447258 CTCTTAACACTAAATCATAAA
1 CCCTAAACCCTAAA-CATAAA
7447279 CCCTAAACCCTAAAC
1 CCCTAAACCCTAAAC
7447294 CTTAAACCTC
Statistics
Matches: 87, Mismatches: 26, Indels: 15
0.68 0.20 0.12
Matches are distributed among these distances:
20 17 0.20
21 53 0.61
22 16 0.18
23 1 0.01
ACGTcount: A:0.48, C:0.30, G:0.01, T:0.21
Consensus pattern (20 bp):
CCCTAAACCCTAAACATAAA
Found at i:7447522 original size:21 final size:21
Alignment explanation
Indices: 7447498--7447544 Score: 58
Period size: 21 Copynumber: 2.2 Consensus size: 21
7447488 TATAAAATAA
*
7447498 TAAACCCCAAACCCCAAACTC
1 TAAACCACAAACCCCAAACTC
* *
7447519 TAAACCATAAACCCTAAACTC
1 TAAACCACAAACCCCAAACTC
*
7447540 AAAAC
1 TAAAC
7447545 TCTAATCCCA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 22 1.00
ACGTcount: A:0.49, C:0.38, G:0.00, T:0.13
Consensus pattern (21 bp):
TAAACCACAAACCCCAAACTC
Found at i:7447523 original size:14 final size:14
Alignment explanation
Indices: 7447506--7447556 Score: 50
Period size: 14 Copynumber: 3.6 Consensus size: 14
7447496 AATAAACCCC
*
7447506 AAACCCCAAACTCT
1 AAACCCAAAACTCT
*
7447520 AAA-CCATAAACCCT
1 AAACCCA-AAACTCT
*
7447534 AAACTCAAAACTCT
1 AAACCCAAAACTCT
*
7447548 AATCCCAAA
1 AAACCCAAA
7447557 TAAACATTAT
Statistics
Matches: 29, Mismatches: 6, Indels: 4
0.74 0.15 0.10
Matches are distributed among these distances:
13 2 0.07
14 25 0.86
15 2 0.07
ACGTcount: A:0.49, C:0.35, G:0.00, T:0.16
Consensus pattern (14 bp):
AAACCCAAAACTCT
Found at i:7447706 original size:40 final size:40
Alignment explanation
Indices: 7447649--7447745 Score: 140
Period size: 40 Copynumber: 2.4 Consensus size: 40
7447639 GCATTTTCCG
*
7447649 AAAAGCGCCGCTAATGCTCGATCTATAGCGGTGTTTTTCA
1 AAAAGCGCCGCTAATGCTCGATCTATAGCGGTATTTTTCA
* * * *
7447689 AATAGCGTCGCTAATGCTCGATCTATTGCGGTATTTTTTA
1 AAAAGCGCCGCTAATGCTCGATCTATAGCGGTATTTTTCA
*
7447729 AAAAGTGCCGCTAATGC
1 AAAAGCGCCGCTAATGC
7447746 CACTTAAGCT
Statistics
Matches: 49, Mismatches: 8, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
40 49 1.00
ACGTcount: A:0.26, C:0.21, G:0.22, T:0.32
Consensus pattern (40 bp):
AAAAGCGCCGCTAATGCTCGATCTATAGCGGTATTTTTCA
Done.