Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
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: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 34 of 313
Found at i:11459316 original size:27 final size:27
Alignment explanation
Indices: 11459221--11459328 Score: 103
Period size: 27 Copynumber: 3.9 Consensus size: 27
11459211 CTCAATTTGT
** * *
11459221 AAAATTACCAAAATACCCCTGATTTAC
1 AAAATTACTGAAATACCCTTGGTTTAC
* *
11459248 AAAATTACGGAAATACCCTTGACTTT-C
1 AAAATTACTGAAATACCCTTG-GTTTAC
*
11459275 TAAAAATTA-TAGAAATACCATTGGTTTAC
1 --AAAATTACT-GAAATACCCTTGGTTTAC
11459304 AAAATTACTGAAATACCCTTGGTTT
1 AAAATTACTGAAATACCCTTGGTTT
11459329 GTAGATTTAC
Statistics
Matches: 67, Mismatches: 8, Indels: 12
0.77 0.09 0.14
Matches are distributed among these distances:
27 41 0.61
28 7 0.10
29 19 0.28
ACGTcount: A:0.41, C:0.19, G:0.09, T:0.31
Consensus pattern (27 bp):
AAAATTACTGAAATACCCTTGGTTTAC
Found at i:11459412 original size:27 final size:27
Alignment explanation
Indices: 11459369--11459442 Score: 80
Period size: 27 Copynumber: 2.7 Consensus size: 27
11459359 AAATGACTAA
*
11459369 AATACCCCTAATA-GGTAAAAAGACCGT
1 AATACCCCT-GTAGGGTAAAAAGACCGT
**
11459396 AA-AGCCCCTGTAGGGTAAAGTGACCGT
1 AATA-CCCCTGTAGGGTAAAAAGACCGT
*
11459423 AATACCCCTGTATGGTAAAA
1 AATACCCCTGTAGGGTAAAA
11459443 TGATGAATAC
Statistics
Matches: 39, Mismatches: 5, Indels: 6
0.78 0.10 0.12
Matches are distributed among these distances:
26 3 0.08
27 35 0.90
28 1 0.03
ACGTcount: A:0.38, C:0.22, G:0.20, T:0.20
Consensus pattern (27 bp):
AATACCCCTGTAGGGTAAAAAGACCGT
Found at i:11460284 original size:26 final size:26
Alignment explanation
Indices: 11460254--11460377 Score: 171
Period size: 26 Copynumber: 4.8 Consensus size: 26
11460244 GAGGAAGTGC
**
11460254 AAAAGGGCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
11460280 AAAAGGGTTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
* **
11460306 AAAAGGCCTTATGCCCCAGTTTATTG
1 AAAAGGGCTTATGCCCCAGTTTACCG
*
11460332 AAAAGGGC-TCTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTACCG
11460357 AAAAGGGCTT-TGCCCCAGTTT
1 AAAAGGGCTTATGCCCCAGTTT
11460378 GCCTCCAGAT
Statistics
Matches: 86, Mismatches: 11, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
25 33 0.38
26 53 0.62
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (26 bp):
AAAAGGGCTTATGCCCCAGTTTACCG
Found at i:11460311 original size:52 final size:51
Alignment explanation
Indices: 11460254--11460377 Score: 205
Period size: 52 Copynumber: 2.4 Consensus size: 51
11460244 GAGGAAGTGC
*
11460254 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGTTTATGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGG-CTATGCCCCAGTTTACCG
* *
11460306 AAAAGGCCTTATGCCCCAGTTTATTGAAAAGGGCTCTGCCCCAGTTTACCG
1 AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTATGCCCCAGTTTACCG
11460357 AAAAGGGCTT-TGCCCCAGTTT
1 AAAAGGGCTTATGCCCCAGTTT
11460378 GCCTCCAGAT
Statistics
Matches: 68, Mismatches: 4, Indels: 2
0.92 0.05 0.03
Matches are distributed among these distances:
50 11 0.16
51 25 0.37
52 32 0.47
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (51 bp):
AAAAGGGCTTATGCCCCAGTTTATTGAAAAGGGCTATGCCCCAGTTTACCG
Found at i:11461015 original size:91 final size:91
Alignment explanation
Indices: 11460860--11461043 Score: 359
Period size: 91 Copynumber: 2.0 Consensus size: 91
11460850 ATACTTTGTT
11460860 TTCACTGTTTGTTTGTTATTGGGATTACACACTGAGTTTTCGTAAACTCACCCCGTTTCTAACTG
1 TTCACTGTTTGTTTGTTATTGGGATTACACACTGAGTTTTCGTAAACTCACCCCGTTTCTAACTG
11460925 TGCAGGTAATCCCTAAGCTTAGATGG
66 TGCAGGTAATCCCTAAGCTTAGATGG
11460951 TTCACTGTTTGTTTGTTATTGGGATTACACACTGAGTTTTCGTAAACTCACCCCGTTTCTAACTG
1 TTCACTGTTTGTTTGTTATTGGGATTACACACTGAGTTTTCGTAAACTCACCCCGTTTCTAACTG
*
11461016 TGCAGGTAATCCCTAAGCTTTGATGG
66 TGCAGGTAATCCCTAAGCTTAGATGG
11461042 TT
1 TT
11461044 TGGAGCTGTG
Statistics
Matches: 92, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
91 92 1.00
ACGTcount: A:0.21, C:0.21, G:0.20, T:0.39
Consensus pattern (91 bp):
TTCACTGTTTGTTTGTTATTGGGATTACACACTGAGTTTTCGTAAACTCACCCCGTTTCTAACTG
TGCAGGTAATCCCTAAGCTTAGATGG
Found at i:11463086 original size:90 final size:90
Alignment explanation
Indices: 11462933--11463113 Score: 362
Period size: 90 Copynumber: 2.0 Consensus size: 90
11462923 AACAAGGTTA
11462933 CAACAAAGAATAAGTATTCGTTGTCGAGAATAGATGATTTGTTTGACCAGTTGAAAGGTGCAACA
1 CAACAAAGAATAAGTATTCGTTGTCGAGAATAGATGATTTGTTTGACCAGTTGAAAGGTGCAACA
11462998 ATATTTTCAAAGATTGATTCTAGGT
66 ATATTTTCAAAGATTGATTCTAGGT
11463023 CAACAAAGAATAAGTATTCGTTGTCGAGAATAGATGATTTGTTTGACCAGTTGAAAGGTGCAACA
1 CAACAAAGAATAAGTATTCGTTGTCGAGAATAGATGATTTGTTTGACCAGTTGAAAGGTGCAACA
11463088 ATATTTTCAAAGATTGATTCTAGGT
66 ATATTTTCAAAGATTGATTCTAGGT
11463113 C
1 C
11463114 TGGTTATTAT
Statistics
Matches: 91, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
90 91 1.00
ACGTcount: A:0.35, C:0.12, G:0.21, T:0.32
Consensus pattern (90 bp):
CAACAAAGAATAAGTATTCGTTGTCGAGAATAGATGATTTGTTTGACCAGTTGAAAGGTGCAACA
ATATTTTCAAAGATTGATTCTAGGT
Found at i:11467033 original size:20 final size:20
Alignment explanation
Indices: 11467008--11467046 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
11466998 GTTGACTACG
11467008 AGATGGTACAGGTACGTACA
1 AGATGGTACAGGTACGTACA
11467028 AGATGGTACAGGTACGTAC
1 AGATGGTACAGGTACGTAC
11467047 GATAATGAAT
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.33, C:0.15, G:0.31, T:0.21
Consensus pattern (20 bp):
AGATGGTACAGGTACGTACA
Found at i:11470080 original size:22 final size:22
Alignment explanation
Indices: 11470052--11470093 Score: 84
Period size: 22 Copynumber: 1.9 Consensus size: 22
11470042 ACCATCTGGG
11470052 TAAGGCTAATGTGGTAGCTAGA
1 TAAGGCTAATGTGGTAGCTAGA
11470074 TAAGGCTAATGTGGTAGCTA
1 TAAGGCTAATGTGGTAGCTA
11470094 ATGCCCTTAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.31, C:0.10, G:0.31, T:0.29
Consensus pattern (22 bp):
TAAGGCTAATGTGGTAGCTAGA
Found at i:11474663 original size:42 final size:42
Alignment explanation
Indices: 11474604--11474688 Score: 161
Period size: 42 Copynumber: 2.0 Consensus size: 42
11474594 GAAAGATATG
11474604 ATATCTCTTTTAAAACCATCTTTACTTACTAACTCAGTCTCA
1 ATATCTCTTTTAAAACCATCTTTACTTACTAACTCAGTCTCA
*
11474646 ATATCTCTTTTAAAACCATCTTTACTTACTAACTCATTCTCA
1 ATATCTCTTTTAAAACCATCTTTACTTACTAACTCAGTCTCA
11474688 A
1 A
11474689 CTCTGACTAC
Statistics
Matches: 42, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
42 42 1.00
ACGTcount: A:0.32, C:0.26, G:0.01, T:0.41
Consensus pattern (42 bp):
ATATCTCTTTTAAAACCATCTTTACTTACTAACTCAGTCTCA
Found at i:11476851 original size:72 final size:72
Alignment explanation
Indices: 11476734--11476874 Score: 246
Period size: 72 Copynumber: 2.0 Consensus size: 72
11476724 CGGATTACCT
*
11476734 TTACTTTCCGTTCAGCATCTTTAATCAAATCAACTCCGAAAATTTTACTTTCACTGAGCTCGGTC
1 TTACTTTCCGTTCAGCATCTTTAATCAAATCAACTCCGAAAATTTTACTTTCACCGAGCTCGGTC
11476799 CAAACCC
66 CAAACCC
* * *
11476806 TTACTTTCTGTTCGGCATCTTTAATCAAATCGACTCCGAAAATTTTACTTTCACCGAGCTCGGTC
1 TTACTTTCCGTTCAGCATCTTTAATCAAATCAACTCCGAAAATTTTACTTTCACCGAGCTCGGTC
11476871 CAAA
66 CAAA
11476875 ACAATGGTGT
Statistics
Matches: 65, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
72 65 1.00
ACGTcount: A:0.27, C:0.28, G:0.11, T:0.34
Consensus pattern (72 bp):
TTACTTTCCGTTCAGCATCTTTAATCAAATCAACTCCGAAAATTTTACTTTCACCGAGCTCGGTC
CAAACCC
Found at i:11477599 original size:104 final size:104
Alignment explanation
Indices: 11477419--11477627 Score: 418
Period size: 104 Copynumber: 2.0 Consensus size: 104
11477409 GTTCCGCTTT
11477419 CACTTGTTGACATATTAAACATCTCGAAACAAAGTCGGAGATGTCCCGTTTCATACCATGCCACC
1 CACTTGTTGACATATTAAACATCTCGAAACAAAGTCGGAGATGTCCCGTTTCATACCATGCCACC
11477484 AAAATTGACGTTTCAAATCGTTGTACATTTTCGTACTCC
66 AAAATTGACGTTTCAAATCGTTGTACATTTTCGTACTCC
11477523 CACTTGTTGACATATTAAACATCTCGAAACAAAGTCGGAGATGTCCCGTTTCATACCATGCCACC
1 CACTTGTTGACATATTAAACATCTCGAAACAAAGTCGGAGATGTCCCGTTTCATACCATGCCACC
11477588 AAAATTGACGTTTCAAATCGTTGTACATTTTCGTACTCC
66 AAAATTGACGTTTCAAATCGTTGTACATTTTCGTACTCC
11477627 C
1 C
11477628 CGGGTGAATT
Statistics
Matches: 105, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
104 105 1.00
ACGTcount: A:0.30, C:0.25, G:0.14, T:0.31
Consensus pattern (104 bp):
CACTTGTTGACATATTAAACATCTCGAAACAAAGTCGGAGATGTCCCGTTTCATACCATGCCACC
AAAATTGACGTTTCAAATCGTTGTACATTTTCGTACTCC
Found at i:11481184 original size:184 final size:184
Alignment explanation
Indices: 11480875--11481241 Score: 689
Period size: 184 Copynumber: 2.0 Consensus size: 184
11480865 AGACCGACAC
*
11480875 CGGAGTCGGACACGAGATGTTAACAAACTTTGAAAAATTTTTCCAGACACTGCCCAGTCTGTGTA
1 CGGAGTCGGACACGAGATGTTAACAAACTTTGAAAAATTTTTCCAGACACTGCCCAGTCTGAGTA
* *
11480940 CTAGTCGCTTCAAAAATCATATCTTGAGTTTCACAACTCGAAAATCAGTTTTGTGATTTTTCCCT
66 CTAGTCGCTTCAAAAATCATATATTGAGTTTCACAACTCAAAAATCAGTTTTGTGATTTTTCCCT
11481005 GAAACTAGACTCATGTCCCCACCTATGTATTTTTGTCTAGAATTTTTGGTCGGT
131 GAAACTAGACTCATGTCCCCACCTATGTATTTTTGTCTAGAATTTTTGGTCGGT
11481059 CGGAGTCGGACACGAGATGTTAACAAACTTTGAAAAATTTTTCCAGACACTGCCCAGTCTGAGTA
1 CGGAGTCGGACACGAGATGTTAACAAACTTTGAAAAATTTTTCCAGACACTGCCCAGTCTGAGTA
11481124 CTAGTCGCTTCAAAAATCATATATTGAGTTTCACAACTCAAAAATCAGTTTTGTGATTTTTCCCT
66 CTAGTCGCTTCAAAAATCATATATTGAGTTTCACAACTCAAAAATCAGTTTTGTGATTTTTCCCT
* *
11481189 GAAACTAGACTCATGTCCCCACCTATGTATTTTTTTCTAGAATTTTTTGTCGG
131 GAAACTAGACTCATGTCCCCACCTATGTATTTTTGTCTAGAATTTTTGGTCGG
11481242 GCCAATTAGT
Statistics
Matches: 178, Mismatches: 5, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
184 178 1.00
ACGTcount: A:0.28, C:0.21, G:0.17, T:0.34
Consensus pattern (184 bp):
CGGAGTCGGACACGAGATGTTAACAAACTTTGAAAAATTTTTCCAGACACTGCCCAGTCTGAGTA
CTAGTCGCTTCAAAAATCATATATTGAGTTTCACAACTCAAAAATCAGTTTTGTGATTTTTCCCT
GAAACTAGACTCATGTCCCCACCTATGTATTTTTGTCTAGAATTTTTGGTCGGT
Found at i:11482514 original size:40 final size:40
Alignment explanation
Indices: 11482414--11482678 Score: 272
Period size: 40 Copynumber: 6.7 Consensus size: 40
11482404 GCTCCTCGTT
* * * * *
11482414 CAAATGCCTTCGGGACATAGCCCGGTTTTAGTAACTCACA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* ** *
11482454 C-AATGCCTTCGGGACATAACCCGGATTTAACAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
*
11482493 CGAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
* *
11482533 CAAAGGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
*
11482573 CAAATGCCTTCGGGGCTTAACCCGGAATTT-GTATCTCGCA
1 CAAATGCCTTCGGGACTTAACCCGG-ATTTAGTATCTCGCA
** * * *
11482613 CAAATGCCTTC-GGATCTTAGTCCGGATATATTCA-CTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGT-ATC-TCGCA
*
11482654 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
11482679 CAGCATTCAA
Statistics
Matches: 198, Mismatches: 20, Indels: 14
0.85 0.09 0.06
Matches are distributed among these distances:
39 39 0.20
40 143 0.72
41 16 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTATCTCGCA
Found at i:11482687 original size:41 final size:41
Alignment explanation
Indices: 11482610--11482687 Score: 97
Period size: 40 Copynumber: 1.9 Consensus size: 41
11482600 TTTGTATCTC
* * *
11482610 GCACAAATGCCTTCGGATCTTAGTCCGGATATATTCACTTA
1 GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
11482651 GCACAAA-GCCTTCGGGA-CTTAGCCCGGACAGCATTCA
1 GCACAAATGCCTTC-GGATCTTAGCCCGGACA-CATTCA
11482688 ATTAATCATG
Statistics
Matches: 32, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
40 17 0.53
41 15 0.47
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (41 bp):
GCACAAATGCCTTCGGATCTTAGCCCGGACACATTCACTTA
Found at i:11483867 original size:115 final size:115
Alignment explanation
Indices: 11483665--11483902 Score: 467
Period size: 115 Copynumber: 2.1 Consensus size: 115
11483655 AGGATGAGAA
11483665 ATTTTTTTCTTTGTTTTTTCTTTCTAATTTAGGCTAAATGAAGGTGAGAAAGGATGAACACAAAA
1 ATTTTTTTCTTTGTTTTTTCTTTCTAATTTAGGCTAAATGAAGGTGAGAAAGGATGAACACAAAA
11483730 TTTTCTCCTTTCTTCTCTTTAGCTCACGGCAATGGGGGGGGCAACCACAC
66 TTTTCTCCTTTCTTCTCTTTAGCTCACGGCAATGGGGGGGGCAACCACAC
*
11483780 ATTTTTTTCTTTGTTTTTTCTTTCTAATTTAGGCTAAATGAAGGTGAGAAAGGATGAACACAAAT
1 ATTTTTTTCTTTGTTTTTTCTTTCTAATTTAGGCTAAATGAAGGTGAGAAAGGATGAACACAAAA
11483845 TTTTCTCCTTTCTTCTCTTTAGCTCACGGCAATGGGGGGGGCAACCACAC
66 TTTTCTCCTTTCTTCTCTTTAGCTCACGGCAATGGGGGGGGCAACCACAC
11483895 ATTTTTTT
1 ATTTTTTT
11483903 TTCTTTTGTT
Statistics
Matches: 122, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
115 122 1.00
ACGTcount: A:0.24, C:0.18, G:0.18, T:0.39
Consensus pattern (115 bp):
ATTTTTTTCTTTGTTTTTTCTTTCTAATTTAGGCTAAATGAAGGTGAGAAAGGATGAACACAAAA
TTTTCTCCTTTCTTCTCTTTAGCTCACGGCAATGGGGGGGGCAACCACAC
Found at i:11487040 original size:17 final size:17
Alignment explanation
Indices: 11487018--11487050 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
11487008 ATGCCTAGTT
11487018 ACATTTCACGAACTCGA
1 ACATTTCACGAACTCGA
11487035 ACATTTCACGAACTCG
1 ACATTTCACGAACTCG
11487051 GACTCAACTC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.33, C:0.30, G:0.12, T:0.24
Consensus pattern (17 bp):
ACATTTCACGAACTCGA
Found at i:11498474 original size:20 final size:20
Alignment explanation
Indices: 11498449--11498488 Score: 80
Period size: 20 Copynumber: 2.0 Consensus size: 20
11498439 GAGGTAAACC
11498449 CTAAACTAGTGAATTTTGAA
1 CTAAACTAGTGAATTTTGAA
11498469 CTAAACTAGTGAATTTTGAA
1 CTAAACTAGTGAATTTTGAA
11498489 AAACTAACAC
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 20 1.00
ACGTcount: A:0.40, C:0.10, G:0.15, T:0.35
Consensus pattern (20 bp):
CTAAACTAGTGAATTTTGAA
Found at i:11501697 original size:36 final size:36
Alignment explanation
Indices: 11501647--11501715 Score: 95
Period size: 36 Copynumber: 1.9 Consensus size: 36
11501637 TAAACTCTAT
* *
11501647 TCAGTTCAATAGCCTTTTTG-ATCTATTCTAACTGAC
1 TCAGTTCAACAGCC-TTTCGAATCTATTCTAACTGAC
*
11501683 TCAGTTCAGCAGCCTTTCGAATCTATTCTAACT
1 TCAGTTCAACAGCCTTTCGAATCTATTCTAACT
11501716 TGTGCACTCC
Statistics
Matches: 29, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
35 4 0.14
36 25 0.86
ACGTcount: A:0.25, C:0.25, G:0.12, T:0.39
Consensus pattern (36 bp):
TCAGTTCAACAGCCTTTCGAATCTATTCTAACTGAC
Found at i:11515033 original size:27 final size:27
Alignment explanation
Indices: 11515000--11515053 Score: 72
Period size: 27 Copynumber: 2.0 Consensus size: 27
11514990 TGTCATGTGA
* *
11515000 AATTGAATGGCAAATTATTGTTACATG
1 AATTGAATGGCAAATTACTATTACATG
**
11515027 AATTGAATGTTAAATTACTATTACATG
1 AATTGAATGGCAAATTACTATTACATG
11515054 GGTTGTATGA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.39, C:0.07, G:0.15, T:0.39
Consensus pattern (27 bp):
AATTGAATGGCAAATTACTATTACATG
Found at i:11515107 original size:23 final size:23
Alignment explanation
Indices: 11515081--11515125 Score: 63
Period size: 23 Copynumber: 2.0 Consensus size: 23
11515071 CACAGTTGTA
*
11515081 CCTGATGAGATTTGGAAAAATCT
1 CCTGATCAGATTTGGAAAAATCT
* *
11515104 CCTGTTCTGATTTGGAAAAATC
1 CCTGATCAGATTTGGAAAAATC
11515126 ATTAAAAATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
23 19 1.00
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (23 bp):
CCTGATCAGATTTGGAAAAATCT
Found at i:11516858 original size:40 final size:40
Alignment explanation
Indices: 11516813--11516892 Score: 160
Period size: 40 Copynumber: 2.0 Consensus size: 40
11516803 GATTGAAAAA
11516813 TACTTTAAAATTCATGCTAAATTTACCTTACCAAAAATTC
1 TACTTTAAAATTCATGCTAAATTTACCTTACCAAAAATTC
11516853 TACTTTAAAATTCATGCTAAATTTACCTTACCAAAAATTC
1 TACTTTAAAATTCATGCTAAATTTACCTTACCAAAAATTC
11516893 ATGGGAAATG
Statistics
Matches: 40, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
40 40 1.00
ACGTcount: A:0.40, C:0.20, G:0.03, T:0.38
Consensus pattern (40 bp):
TACTTTAAAATTCATGCTAAATTTACCTTACCAAAAATTC
Found at i:11519440 original size:25 final size:25
Alignment explanation
Indices: 11519411--11519458 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
11519401 TTATAACATG
* * *
11519411 AAAATGACCGTTTTGCCCCTAGGTA
1 AAAATGACCATTATACCCCTAGGTA
11519436 AAAATGACCATTATACCCCTAGG
1 AAAATGACCATTATACCCCTAGG
11519459 GTTTATGTAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.33, C:0.25, G:0.17, T:0.25
Consensus pattern (25 bp):
AAAATGACCATTATACCCCTAGGTA
Found at i:11519525 original size:20 final size:20
Alignment explanation
Indices: 11519502--11519540 Score: 78
Period size: 20 Copynumber: 1.9 Consensus size: 20
11519492 TAAACATGGT
11519502 ATGTATGATATGCACATGAC
1 ATGTATGATATGCACATGAC
11519522 ATGTATGATATGCACATGA
1 ATGTATGATATGCACATGA
11519541 TGTAATCATA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 19 1.00
ACGTcount: A:0.36, C:0.13, G:0.21, T:0.31
Consensus pattern (20 bp):
ATGTATGATATGCACATGAC
Found at i:11519622 original size:23 final size:23
Alignment explanation
Indices: 11519592--11519662 Score: 142
Period size: 23 Copynumber: 3.1 Consensus size: 23
11519582 AGGAAGTGAA
11519592 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
11519615 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
11519638 AAAGGGCTTATGCCCCAGTTATT
1 AAAGGGCTTATGCCCCAGTTATT
11519661 AA
1 AA
11519663 GCCCCAGTTA
Statistics
Matches: 48, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 48 1.00
ACGTcount: A:0.28, C:0.21, G:0.21, T:0.30
Consensus pattern (23 bp):
AAAGGGCTTATGCCCCAGTTATT
Found at i:11519668 original size:14 final size:14
Alignment explanation
Indices: 11519649--11519676 Score: 56
Period size: 14 Copynumber: 2.0 Consensus size: 14
11519639 AAGGGCTTAT
11519649 GCCCCAGTTATTAA
1 GCCCCAGTTATTAA
11519663 GCCCCAGTTATTAA
1 GCCCCAGTTATTAA
11519677 AGGGCTTATG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 14 1.00
ACGTcount: A:0.29, C:0.29, G:0.14, T:0.29
Consensus pattern (14 bp):
GCCCCAGTTATTAA
Found at i:11519676 original size:37 final size:37
Alignment explanation
Indices: 11519626--11519699 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
11519616 AAGGGCTTAT
11519626 GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAA
1 GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAA
11519663 GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAA
1 GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAA
11519700 AAGGGCTTTT
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.27, C:0.24, G:0.19, T:0.30
Consensus pattern (37 bp):
GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAA
Found at i:11519689 original size:23 final size:24
Alignment explanation
Indices: 11519663--11519726 Score: 103
Period size: 24 Copynumber: 2.7 Consensus size: 24
11519653 CAGTTATTAA
11519663 GCCCCAGTTATT-AAAGGGCTTAT
1 GCCCCAGTTATTAAAAGGGCTTAT
*
11519686 GCCCCAGTTATTAAAAGGGCTTTT
1 GCCCCAGTTATTAAAAGGGCTTAT
*
11519710 GCCCCAGTTATTCAAAG
1 GCCCCAGTTATTAAAAG
11519727 AGGATAGGCC
Statistics
Matches: 38, Mismatches: 2, Indels: 1
0.93 0.05 0.02
Matches are distributed among these distances:
23 12 0.32
24 26 0.68
ACGTcount: A:0.27, C:0.23, G:0.20, T:0.30
Consensus pattern (24 bp):
GCCCCAGTTATTAAAAGGGCTTAT
Found at i:11519696 original size:60 final size:61
Alignment explanation
Indices: 11519603--11519721 Score: 222
Period size: 60 Copynumber: 2.0 Consensus size: 61
11519593 AAGGGCTTAT
11519603 GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATT-AAAGGGCTTATGCCCCAGTTATTAA
1 GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAA
*
11519663 GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTTTGCCCCAGTTATT
1 GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATT
11519722 CAAAGAGGAT
Statistics
Matches: 57, Mismatches: 1, Indels: 1
0.97 0.02 0.02
Matches are distributed among these distances:
60 35 0.61
61 22 0.39
ACGTcount: A:0.25, C:0.24, G:0.20, T:0.31
Consensus pattern (61 bp):
GCCCCAGTTATTAAAGGGCTTATGCCCCAGTTATTAAAAGGGCTTATGCCCCAGTTATTAA
Found at i:11522253 original size:32 final size:34
Alignment explanation
Indices: 11522204--11522268 Score: 91
Period size: 32 Copynumber: 2.0 Consensus size: 34
11522194 ACAGTGCATG
*
11522204 CAGTAACAGTCTGGGCC-TAAGCCCTATTCAATAT
1 CAGTAACAGTCTGGGCCTTAA-CCCTATACAATAT
11522238 CAGT-ACAGTC-GGGCCTTAACCCTATACAATA
1 CAGTAACAGTCTGGGCCTTAACCCTATACAATA
11522269 ACAATATGGG
Statistics
Matches: 29, Mismatches: 1, Indels: 4
0.85 0.03 0.12
Matches are distributed among these distances:
32 16 0.55
33 9 0.31
34 4 0.14
ACGTcount: A:0.31, C:0.28, G:0.17, T:0.25
Consensus pattern (34 bp):
CAGTAACAGTCTGGGCCTTAACCCTATACAATAT
Found at i:11526600 original size:20 final size:21
Alignment explanation
Indices: 11526575--11526619 Score: 83
Period size: 20 Copynumber: 2.2 Consensus size: 21
11526565 AAGCATTCAA
11526575 ATCAAGCAAATTCTATCATT-
1 ATCAAGCAAATTCTATCATTC
11526595 ATCAAGCAAATTCTATCATTC
1 ATCAAGCAAATTCTATCATTC
11526616 ATCA
1 ATCA
11526620 TGGCATATCA
Statistics
Matches: 24, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
20 20 0.83
21 4 0.17
ACGTcount: A:0.40, C:0.22, G:0.04, T:0.33
Consensus pattern (21 bp):
ATCAAGCAAATTCTATCATTC
Found at i:11528460 original size:71 final size:71
Alignment explanation
Indices: 11528322--11528518 Score: 177
Period size: 71 Copynumber: 2.8 Consensus size: 71
11528312 TTAATCGGTT
* * * * * * *
11528322 ATCCAGTAACAGTCAATTATTCAATAA-AATCAGA-TATTCAGTAACAATTAAGTTATTCAGTAT
1 ATCCAGTAACAATCAATTATCCAGTAATAGTCA-ATTATTCAGTAA-TATTCAG-TATTCAGTAA
*
11528385 CAGTC-ATTC
63 CAGTCTA-AC
* * * *
11528394 ATTCAGTGACAATCAGTTATTCAGTAAT-GATCAATTATTCAGTAATATTCAGTATTCAGTAACA
1 ATCCAGTAACAATCAATTATCCAGTAATAG-TCAATTATTCAGTAATATTCAGTATTCAGTAACA
11528458 GTCTAAC
65 GTCTAAC
* * * *
11528465 ATCCAGTAACAGTCAATTATCCGGTAATAGTCAATTATTTAGTAATAATCAGTA
1 ATCCAGTAACAATCAATTATCCAGTAATAGTCAATTATTCAGTAATATTCAGTA
11528519 ATTTTATACC
Statistics
Matches: 102, Mismatches: 18, Indels: 11
0.78 0.14 0.08
Matches are distributed among these distances:
71 59 0.58
72 30 0.29
73 13 0.13
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.34
Consensus pattern (71 bp):
ATCCAGTAACAATCAATTATCCAGTAATAGTCAATTATTCAGTAATATTCAGTATTCAGTAACAG
TCTAAC
Found at i:11528486 original size:18 final size:18
Alignment explanation
Indices: 11528320--11528509 Score: 122
Period size: 18 Copynumber: 10.6 Consensus size: 18
11528310 AATTAATCGG
*
11528320 TTATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* *
11528338 TTATTCAATAA-AATCAGA
1 TTATTCAGTAACAGTCA-A
* *
11528356 -TATTCAGTAACAATTAA
1 TTATTCAGTAACAGTCAA
*
11528373 GTTATTCAGTATCAGTC-A
1 -TTATTCAGTAACAGTCAA
* * *
11528391 TTCATTCAGTGACAATCAG
1 TT-ATTCAGTAACAGTCAA
*
11528410 TTATTCAGTAA-TGATCAA
1 TTATTCAGTAACAG-TCAA
* *
11528428 TTATTCAGTAATATTC-A
1 TTATTCAGTAACAGTCAA
*
11528445 GTATTCAGTAACAGTCTAA
1 TTATTCAGTAACAGTC-AA
* *
11528464 -CATCCAGTAACAGTCAA
1 TTATTCAGTAACAGTCAA
* * *
11528481 TTATCCGGTAATAGTCAA
1 TTATTCAGTAACAGTCAA
*
11528499 TTATTTAGTAA
1 TTATTCAGTAA
11528510 TAATCAGTAA
Statistics
Matches: 132, Mismatches: 29, Indels: 22
0.72 0.16 0.12
Matches are distributed among these distances:
17 32 0.24
18 85 0.64
19 15 0.11
ACGTcount: A:0.38, C:0.16, G:0.12, T:0.35
Consensus pattern (18 bp):
TTATTCAGTAACAGTCAA
Found at i:11530040 original size:12 final size:12
Alignment explanation
Indices: 11530023--11530049 Score: 54
Period size: 12 Copynumber: 2.2 Consensus size: 12
11530013 ATTCCGAAGT
11530023 ATATATATATAC
1 ATATATATATAC
11530035 ATATATATATAC
1 ATATATATATAC
11530047 ATA
1 ATA
11530050 AGTATGCCCA
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:0.52, C:0.07, G:0.00, T:0.41
Consensus pattern (12 bp):
ATATATATATAC
Found at i:11530608 original size:27 final size:28
Alignment explanation
Indices: 11530524--11530621 Score: 162
Period size: 28 Copynumber: 3.5 Consensus size: 28
11530514 TAAATTGTAC
*
11530524 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
11530552 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
11530580 AGCACTAAGTGTGCGAG-TTGATTATAT
1 AGCACTAAGTGTGCGAGCTTGATTATAT
*
11530607 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
11530622 GACTTAATAT
Statistics
Matches: 67, Mismatches: 3, Indels: 1
0.94 0.04 0.01
Matches are distributed among these distances:
27 24 0.36
28 43 0.64
ACGTcount: A:0.27, C:0.13, G:0.29, T:0.32
Consensus pattern (28 bp):
AGCACTAAGTGTGCGAGCTTGATTATAT
Found at i:11530632 original size:27 final size:27
Alignment explanation
Indices: 11530524--11530634 Score: 125
Period size: 28 Copynumber: 4.0 Consensus size: 27
11530514 TAAATTGTAC
* *
11530524 AGCACTAAGTGTGCGAGCTTGATTATGT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
11530552 AGCACTAAGTGTGCGAGTTTGATTATAT
1 AGCACTAAGTGTGCGA-CTTGAATATAT
* *
11530580 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGACTTGAATATAT
*
11530607 AGCACTGAGTGTGCGGACTT-AATATAT
1 AGCACTAAGTGTGC-GACTTGAATATAT
11530634 A
1 A
11530635 CTTTTGAATC
Statistics
Matches: 76, Mismatches: 6, Indels: 3
0.89 0.07 0.04
Matches are distributed among these distances:
27 30 0.39
28 46 0.61
ACGTcount: A:0.29, C:0.13, G:0.26, T:0.32
Consensus pattern (27 bp):
AGCACTAAGTGTGCGACTTGAATATAT
Found at i:11532214 original size:6 final size:6
Alignment explanation
Indices: 11532203--11532227 Score: 50
Period size: 6 Copynumber: 4.2 Consensus size: 6
11532193 ACAGATCCGG
11532203 AACAGT AACAGT AACAGT AACAGT A
1 AACAGT AACAGT AACAGT AACAGT A
11532228 TTCAACACAC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 19 1.00
ACGTcount: A:0.52, C:0.16, G:0.16, T:0.16
Consensus pattern (6 bp):
AACAGT
Found at i:11532281 original size:45 final size:45
Alignment explanation
Indices: 11532208--11532317 Score: 166
Period size: 45 Copynumber: 2.4 Consensus size: 45
11532198 TCCGGAACAG
**
11532208 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGTTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
* * *
11532253 TAACGGTAACAGTAACAGTATTCGACACACAAAGTGCCGAATCGG
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
*
11532298 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
11532318 ACATAGTCGG
Statistics
Matches: 58, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
45 58 1.00
ACGTcount: A:0.42, C:0.19, G:0.19, T:0.20
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAATCGA
Found at i:11532312 original size:12 final size:12
Alignment explanation
Indices: 11532295--11532319 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
11532285 AGTGCCGAAT
11532295 CGGTAACAGTAA
1 CGGTAACAGTAA
11532307 CGGTAACAGTAA
1 CGGTAACAGTAA
11532319 C
1 C
11532320 ATAGTCGGCA
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (12 bp):
CGGTAACAGTAA
Found at i:11538147 original size:18 final size:18
Alignment explanation
Indices: 11538113--11538407 Score: 132
Period size: 18 Copynumber: 16.1 Consensus size: 18
11538103 TCATTAACAC
* *
11538113 TCAG-AACAATTATTTAT
1 TCAGTAACAATCAGTTAT
*
11538130 TCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAGTTAT
* * *
11538148 ACGGTAACAATCAATTAT
1 TCAGTAACAATCAGTTAT
* * *
11538166 TCAATAATAACCAGTTAT
1 TCAGTAACAATCAGTTAT
*
11538184 TCAGTATCGATCAATTGATTGGTTAT
1 TCAGTA---A-CAA-TCA---GTTAT
* * *
11538210 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
11538228 TCAATAA-AATCAGATAT
1 TCAGTAACAATCAGTTAT
*
11538245 TCAG-AACAATTAAGTTAT
1 TCAGTAACAA-TCAGTTAT
*
11538263 TCAGTAACAGTCA-TTCAT
1 TCAGTAACAATCAGTT-AT
*
11538281 TCAGTGACAATCAGTTAT
1 TCAGTAACAATCAGTTAT
** *
11538299 TCAGTAATGATCAATTAT
1 TCAGTAACAATCAGTTAT
* * * *
11538317 TCAGAAATATTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
11538335 TCAGTAACAGTCTA-ATAT
1 TCAGTAACAATC-AGTTAT
* * *
11538353 CCAGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* * * *
11538371 CCGGTAACAGTCAATTAT
1 TCAGTAACAATCAGTTAT
* *
11538389 TCAGTAATAATTAGTTAT
1 TCAGTAACAATCAGTTAT
11538407 T
1 T
11538408 TTATACCTTT
Statistics
Matches: 209, Mismatches: 53, Indels: 31
0.71 0.18 0.11
Matches are distributed among these distances:
16 2 0.01
17 19 0.09
18 162 0.78
19 7 0.03
21 3 0.01
22 4 0.02
23 2 0.01
26 10 0.05
ACGTcount: A:0.39, C:0.15, G:0.12, T:0.35
Consensus pattern (18 bp):
TCAGTAACAATCAGTTAT
Found at i:11538166 original size:36 final size:36
Alignment explanation
Indices: 11538113--11538395 Score: 155
Period size: 36 Copynumber: 7.7 Consensus size: 36
11538103 TCATTAACAC
* *
11538113 TCAG-AACAATTATTTATTCAGTAACAGTCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * * * **
11538148 ACGGTAACAATCAATTATTCAATAATAACCAGTTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * *
11538184 TCAGTATCGATCAATTGATTGGTTATCCAGTAACAGTCAATTAT
1 TCAGTAACAATCAATT-A-----T-T-CAGTAACAGTCAGTTAT
* * *
11538228 TCAATAA-AATCAGA-TATTCAG-AACAATTAAGTTAT
1 TCAGTAACAATCA-ATTATTCAGTAAC-AGTCAGTTAT
* * *
11538263 TCAGTAACAGTC-ATTCATTCAGTGACAATCAGTTAT
1 TCAGTAACAATCAATT-ATTCAGTAACAGTCAGTTAT
** * * * *
11538299 TCAGTAATGATCAATTATTCAGAAATATTCAATTAT
1 TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
* * *
11538335 TCAGTAACAGTCTAA-TATCCAGTAACAGTCAATTAT
1 TCAGTAACAATC-AATTATTCAGTAACAGTCAGTTAT
* * *
11538371 CCGGTAACAGTCAATTATTCAGTAA
1 TCAGTAACAATCAATTATTCAGTAA
11538396 TAATTAGTTA
Statistics
Matches: 184, Mismatches: 46, Indels: 35
0.69 0.17 0.13
Matches are distributed among these distances:
34 4 0.02
35 21 0.11
36 124 0.67
37 9 0.05
42 2 0.01
43 6 0.03
44 18 0.10
ACGTcount: A:0.39, C:0.16, G:0.12, T:0.34
Consensus pattern (36 bp):
TCAGTAACAATCAATTATTCAGTAACAGTCAGTTAT
Found at i:11538407 original size:72 final size:70
Alignment explanation
Indices: 11538207--11538407 Score: 203
Period size: 72 Copynumber: 2.8 Consensus size: 70
11538197 ATTGATTGGT
* * *
11538207 TATCCAGTAACAGTCAATTATTCAATAAAATCAGA-TATTCAGAACAATTAAGTTATTCAGTAAC
1 TATCCAGTAACAGTCAATTATTCAGTAAAGTCA-ATTATTCAGAATAATTAAGTTATTCAGTAAC
*
11538271 AGTCAT
65 AGTCAA
* * * * *
11538277 TCATTCAGTGACAATCAGTTATTCAGTAATGATCAATTATTCAGAA-ATATTCAA-TTATTCAGT
1 T-ATCCAGTAACAGTCAATTATTCAGTAAAG-TCAATTATTCAGAATA-ATT-AAGTTATTCAGT
11538340 AACAGTCTAA
62 AACAGTC-AA
* *
11538350 TATCCAGTAACAGTCAATTATCCGGTAACAGTCAATTATTCAGTAATAATT-AGTTATT
1 TATCCAGTAACAGTCAATTATTCAGTAA-AGTCAATTATTCAG-AATAATTAAGTTATT
11538408 TTATACCTTT
Statistics
Matches: 106, Mismatches: 15, Indels: 18
0.76 0.11 0.13
Matches are distributed among these distances:
70 1 0.01
71 25 0.24
72 69 0.65
73 10 0.09
74 1 0.01
ACGTcount: A:0.39, C:0.15, G:0.11, T:0.34
Consensus pattern (70 bp):
TATCCAGTAACAGTCAATTATTCAGTAAAGTCAATTATTCAGAATAATTAAGTTATTCAGTAACA
GTCAA
Found at i:11538632 original size:45 final size:45
Alignment explanation
Indices: 11538576--11538685 Score: 184
Period size: 45 Copynumber: 2.4 Consensus size: 45
11538566 TCTGGAACAC
* *
11538576 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCTGAATCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAACCGA
*
11538621 TAACCGTAACAGTAACAGTATTCAACACACAAAGTGCCGAACCGA
1 TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAACCGA
*
11538666 TAACAGTAACGGTAACAGTA
1 TAACAGTAACAGTAACAGTA
11538686 ACAGTAGTCG
Statistics
Matches: 60, Mismatches: 5, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
45 60 1.00
ACGTcount: A:0.44, C:0.22, G:0.16, T:0.18
Consensus pattern (45 bp):
TAACAGTAACAGTAACAGTATTCAACACACAAAGTGCCGAACCGA
Found at i:11544463 original size:19 final size:17
Alignment explanation
Indices: 11544439--11544473 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 17
11544429 AAAAGTGACA
11544439 AAATTAAAATATGATAATT
1 AAATT-AAATA-GATAATT
11544458 AAATTAAATAGATAAT
1 AAATTAAATAGATAAT
11544474 ATCATCTTAT
Statistics
Matches: 16, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.38
18 5 0.31
19 5 0.31
ACGTcount: A:0.60, C:0.00, G:0.06, T:0.34
Consensus pattern (17 bp):
AAATTAAATAGATAATT
Found at i:11551269 original size:17 final size:17
Alignment explanation
Indices: 11551247--11551282 Score: 72
Period size: 17 Copynumber: 2.1 Consensus size: 17
11551237 CCTTTTGCTG
11551247 TAATTTGAAATATGAGT
1 TAATTTGAAATATGAGT
11551264 TAATTTGAAATATGAGT
1 TAATTTGAAATATGAGT
11551281 TA
1 TA
11551283 TATTAGGTGC
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 19 1.00
ACGTcount: A:0.42, C:0.00, G:0.17, T:0.42
Consensus pattern (17 bp):
TAATTTGAAATATGAGT
Found at i:11566947 original size:14 final size:14
Alignment explanation
Indices: 11566928--11566966 Score: 78
Period size: 14 Copynumber: 2.8 Consensus size: 14
11566918 ATATTTGATT
11566928 TGTTCTTAATTATA
1 TGTTCTTAATTATA
11566942 TGTTCTTAATTATA
1 TGTTCTTAATTATA
11566956 TGTTCTTAATT
1 TGTTCTTAATT
11566967 CTTATTTTAA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 25 1.00
ACGTcount: A:0.26, C:0.08, G:0.08, T:0.59
Consensus pattern (14 bp):
TGTTCTTAATTATA
Found at i:11578450 original size:113 final size:114
Alignment explanation
Indices: 11578314--11578575 Score: 323
Period size: 113 Copynumber: 2.3 Consensus size: 114
11578304 CTGCGGTGTT
* * *
11578314 TTTAT-AAAGCGCCACTAATAACAAGGCTACAAACGATGCCGTTTTGCAATCTGTTAAAAG-ATA
1 TTTATAAAAGCGCCACTAATAACAAGGCTACAAACGACGCCGTTTTACAATCTCTTAAAAGTATA
* * * **
11578377 TTTGTGGCATTTTCTGGTGCAAACGCCGGCAATTCACACCTTTTGTGAC-
66 TTTGTGGCATTTTC-GGTGCAAACGCCCGCAATACACACCTTTAGCAACG
* * * *
11578426 TTTATAAAAGCGCCACTAATAACAAGGCTATAAACGACGCCGTTTTACAATCTCTTAATAGTTTT
1 TTTATAAAAGCGCCACTAATAACAAGGCTACAAACGACGCCGTTTTACAATCTCTTAAAAGTATA
* * *
11578491 TTTGTGGCATTTTCGGTGTAAACGCCCGTAATACATACCTTTAGCAACG
66 TTTGTGGCATTTTCGGTGCAAACGCCCGCAATACACACCTTTAGCAACG
* *
11578540 TTTTTTAAAAAGCGCCACTAATAACAAAGCTACAAA
1 -TTTAT-AAAAGCGCCACTAATAACAAGGCTACAAA
11578576 TGGGCTCATT
Statistics
Matches: 127, Mismatches: 18, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
112 5 0.04
113 76 0.60
114 15 0.12
115 4 0.03
116 27 0.21
ACGTcount: A:0.32, C:0.21, G:0.16, T:0.31
Consensus pattern (114 bp):
TTTATAAAAGCGCCACTAATAACAAGGCTACAAACGACGCCGTTTTACAATCTCTTAAAAGTATA
TTTGTGGCATTTTCGGTGCAAACGCCCGCAATACACACCTTTAGCAACG
Found at i:11578846 original size:22 final size:22
Alignment explanation
Indices: 11578820--11578862 Score: 77
Period size: 22 Copynumber: 2.0 Consensus size: 22
11578810 TAATATTATT
*
11578820 AACTTTTTTATTAAAACATTAA
1 AACTTTTTGATTAAAACATTAA
11578842 AACTTTTTGATTAAAACATTA
1 AACTTTTTGATTAAAACATTA
11578863 CATGGTAATA
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 20 1.00
ACGTcount: A:0.44, C:0.09, G:0.02, T:0.44
Consensus pattern (22 bp):
AACTTTTTGATTAAAACATTAA
Found at i:11580099 original size:46 final size:48
Alignment explanation
Indices: 11579998--11580264 Score: 230
Period size: 46 Copynumber: 5.6 Consensus size: 48
11579988 GGGTTATTGT
* * *
11579998 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGACG-A
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGTA
*
11580046 GTGCTAGTGTAAGA-CATGTCTGGGACATGCATCGGCCTCGAGATGTA
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTA
* * *
11580093 -ACCTAGTGTAAGA-CACGTCTAGGACATGCATCGG-CTACGAGATGT-
1 GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCT-CGAGATGTA
* * * *
11580138 G-TC-AGTGTAAGACCATGTCTGGGACATGGCATCGACAC-GGATATGTGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGC-CTCGAGATGT-A
* * * * *
11580186 GAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTCTA-TTTTGA
1 GAGCTAGTGTAAGACCATGTCTGGGACAT-GCATCGGCCTCGAGATGT-A
* * *
11580235 TAGCCAGTGTAAGACCATGTCTGAGACATG
1 GAGCTAGTGTAAGACCATGTCTGGGACATG
11580265 GCATTAACTT
Statistics
Matches: 182, Mismatches: 25, Indels: 24
0.79 0.11 0.10
Matches are distributed among these distances:
44 9 0.05
45 15 0.08
46 64 0.35
47 15 0.08
48 16 0.09
49 32 0.18
50 31 0.17
ACGTcount: A:0.26, C:0.20, G:0.30, T:0.24
Consensus pattern (48 bp):
GAGCTAGTGTAAGACCATGTCTGGGACATGCATCGGCCTCGAGATGTA
Found at i:11580263 original size:49 final size:50
Alignment explanation
Indices: 11579998--11580317 Score: 173
Period size: 46 Copynumber: 6.7 Consensus size: 50
11579988 GGGTTATTGT
* * ** * *
11579998 GAGCTAGTGTAAGACCATGTCTGGGACATGGCATCGGCATTGAGA--CGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGATATGTGA
* * * * *
11580046 GTGCTAGTGTAAGA-CATGTCTGGGACAT-GCATCGGC-CTCGAGATGT-A
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACAC-GGATATGTGA
* * * *
11580093 -A-CCTAGTGTAAGA-CACGTCTAGGACAT-GCATCGGCTAC-GAGATGT--
1 GAGCC-AGTGTAAGACCATGTCTGGGACATGGCATCGAC-ACGGATATGTGA
*
11580138 --GTCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGATATGTGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGATATGTGA
* * * * * *
11580186 GAGCTAGTGTAAGACCATGTCTGGGACATGGCGTCAGCCTC-TAT-TTTGA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATC-GACACGGATATGTGA
* * * *
11580235 TAGCCAGTGTAAGACCATGTCTGAGACATGGCAT-TA-AC--TTGATG-GA
1 GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGAT-ATGTGA
*
11580281 TGAGCCAGTGTAA-AGCCATGTCTGAGACATGGCATCG
1 -GAGCCAGTGTAAGA-CCATGTCTGGGACATGGCATCG
11580318 GCATTATACC
Statistics
Matches: 221, Mismatches: 31, Indels: 40
0.76 0.11 0.14
Matches are distributed among these distances:
44 9 0.04
45 17 0.08
46 65 0.29
47 47 0.21
48 14 0.06
49 34 0.15
50 32 0.14
51 3 0.01
ACGTcount: A:0.27, C:0.20, G:0.30, T:0.24
Consensus pattern (50 bp):
GAGCCAGTGTAAGACCATGTCTGGGACATGGCATCGACACGGATATGTGA
Found at i:11582553 original size:21 final size:21
Alignment explanation
Indices: 11582516--11582821 Score: 110
Period size: 21 Copynumber: 14.1 Consensus size: 21
11582506 TTTTCTATAG
*
11582516 TTTAGGGTTTTATGGTTTAGGA
1 TTTAGGG-TTTAAGGTTTAGGA
*
11582538 TTTAGGGTTTAAGGTTTA-AA
1 TTTAGGGTTTAAGGTTTAGGA
*
11582558 GTTTAGGGTTT-AGAGTTT-GTA
1 -TTTAGGGTTTAAG-GTTTAGGA
* *
11582579 TTTAATGGTTTTATGGTTTAGTGA
1 TTT-A-GGGTTTAAGGTTTAG-GA
* * *
11582603 -TTCGGGTTTAGAGTTTTAAGA
1 TTTAGGGTTTA-AGGTTTAGGA
* * * * *
11582624 TTTAAGATTT-TGTATTTAGGGG
1 TTTAGGGTTTAAG-GTTTA-GGA
* * * *
11582646 TTTAATGGTTTAATGTCTA-TA
1 TTT-AGGGTTTAAGGTTTAGGA
*
11582667 GTTTAGGGTTTATGGTTTAGGA
1 -TTTAGGGTTTAAGGTTTAGGA
* *
11582689 TTTAGGGTTT-GGGCTTTAGGG
1 TTTAGGGTTTAAGG-TTTAGGA
* *
11582710 TTTAAGGTTTATAGTTTTAGGA
1 TTTAGGGTTTA-AGGTTTAGGA
* * *
11582732 TTTAGGATTT-AGGATTTTGTA
1 TTTAGGGTTTAAGG-TTTAGGA
*
11582753 TTTAAGGGCTTAAGGGTTTAGTGA
1 TTT-AGGGTTTAA-GGTTTAG-GA
*
11582777 TTTA-GGTTTAGGGTTTAAGG-
1 TTTAGGGTTTAAGGTTT-AGGA
* *
11582797 TTTAGAGTTTTAGGATTTAGGA
1 TTTAGGGTTTAAGG-TTTAGGA
11582819 TTT
1 TTT
11582822 TGTATTTAAG
Statistics
Matches: 205, Mismatches: 51, Indels: 56
0.66 0.16 0.18
Matches are distributed among these distances:
20 15 0.07
21 97 0.47
22 67 0.33
23 19 0.09
24 7 0.03
ACGTcount: A:0.22, C:0.01, G:0.29, T:0.48
Consensus pattern (21 bp):
TTTAGGGTTTAAGGTTTAGGA
Found at i:11582570 original size:7 final size:7
Alignment explanation
Indices: 11582515--11582575 Score: 59
Period size: 7 Copynumber: 8.6 Consensus size: 7
11582505 ATTTTCTATA
11582515 GTTTAGG
1 GTTTAGG
*
11582522 GTTTTATG
1 G-TTTAGG
11582530 GTTTAGG
1 GTTTAGG
*
11582537 ATTTAGG
1 GTTTAGG
*
11582544 GTTTAAG
1 GTTTAGG
**
11582551 GTTTAAA
1 GTTTAGG
11582558 GTTTAGG
1 GTTTAGG
*
11582565 GTTTAGA
1 GTTTAGG
11582572 GTTT
1 GTTT
11582576 GTATTTAATG
Statistics
Matches: 44, Mismatches: 9, Indels: 2
0.80 0.16 0.04
Matches are distributed among these distances:
7 38 0.86
8 6 0.14
ACGTcount: A:0.21, C:0.00, G:0.31, T:0.48
Consensus pattern (7 bp):
GTTTAGG
Found at i:11582684 original size:14 final size:14
Alignment explanation
Indices: 11582638--11582806 Score: 76
Period size: 14 Copynumber: 11.7 Consensus size: 14
11582628 AGATTTTGTA
11582638 TTTAGGGGTTTAATGG
1 TTTA-GGGTTT-ATGG
** * *
11582654 TTTAATGTCTATAG
1 TTTAGGGTTTATGG
11582668 TTTAGGGTTTATGG
1 TTTAGGGTTTATGG
* *
11582682 TTTAGGATTTAGGG
1 TTTAGGGTTTATGG
*
11582696 TTT-GGGCTTTAGGG
1 TTTAGGG-TTTATGG
* *
11582710 TTTAAGGTTTATAGT
1 TTTAGGGTTTAT-GG
*
11582725 TTTAGGATTTA-GG
1 TTTAGGGTTTATGG
* *
11582738 ATTTAGGATTT-TGTA
1 -TTTAGGGTTTATG-G
* *
11582753 TTTAAGGGCTTAAGGG
1 TTT-AGGG-TTTATGG
*
11582769 TTTAGTGATTTA-GG
1 TTTAG-GGTTTATGG
*
11582783 TTTAGGGTTTAAGG
1 TTTAGGGTTTATGG
*
11582797 TTTAGAGTTT
1 TTTAGGGTTT
11582807 TAGGATTTAG
Statistics
Matches: 116, Mismatches: 26, Indels: 24
0.70 0.16 0.14
Matches are distributed among these distances:
13 8 0.07
14 74 0.64
15 23 0.20
16 10 0.09
17 1 0.01
ACGTcount: A:0.21, C:0.02, G:0.30, T:0.47
Consensus pattern (14 bp):
TTTAGGGTTTATGG
Found at i:11582735 original size:7 final size:7
Alignment explanation
Indices: 11582668--11582821 Score: 82
Period size: 7 Copynumber: 21.4 Consensus size: 7
11582658 ATGTCTATAG
*
11582668 TTTAGGG
1 TTTAGGA
11582675 TTTATGG-
1 TTTA-GGA
11582682 TTTAGGA
1 TTTAGGA
*
11582689 TTTAGGG
1 TTTAGGA
* *
11582696 TTTGGGC
1 TTTAGGA
*
11582703 TTTAGGG
1 TTTAGGA
11582710 TTTAAGG-
1 TTT-AGGA
* *
11582717 TTTATAGT
1 TTTA-GGA
11582725 TTTAGGA
1 TTTAGGA
11582732 TTTAGGA
1 TTTAGGA
11582739 TTTAGGA
1 TTTAGGA
* *
11582746 TTTTGTA
1 TTTAGGA
*
11582753 TTTAAGGGC
1 TTT-A-GGA
* *
11582762 TTAAGGG
1 TTTAGGA
11582769 TTTAGTGA
1 TTTAG-GA
11582777 TTTAGG-
1 TTTAGGA
*
11582783 TTTAGGG
1 TTTAGGA
11582790 TTTAAGG-
1 TTT-AGGA
*
11582797 TTTAGAGT
1 TTTAG-GA
11582805 TTTAGGA
1 TTTAGGA
11582812 TTTAGGA
1 TTTAGGA
11582819 TTT
1 TTT
11582822 TGTATTTAAG
Statistics
Matches: 117, Mismatches: 18, Indels: 24
0.74 0.11 0.15
Matches are distributed among these distances:
6 11 0.09
7 79 0.68
8 24 0.21
9 3 0.03
ACGTcount: A:0.21, C:0.01, G:0.31, T:0.47
Consensus pattern (7 bp):
TTTAGGA
Found at i:11582785 original size:73 final size:74
Alignment explanation
Indices: 11582703--11582839 Score: 215
Period size: 73 Copynumber: 1.9 Consensus size: 74
11582693 GGGTTTGGGC
*
11582703 TTTAGGGTTTAAGGTTTATAGTTTTAG-GATTTAGGATTTAGGATTTTGTATTTAAGGGCTTAAG
1 TTTAGGGTTTAAGGTTTA-AGGTTTAGAGATTTAGGATTTAGGATTTTGTATTTAAGGGCTTAAG
11582767 GGTTTAGTGA
65 GGTTTAGTGA
* * *
11582777 TTTA-GGTTTAGGGTTTAAGGTTTAGAGTTTTAGGATTTAGGATTTTGTATTTAAGGGTTTAAG
1 TTTAGGGTTTAAGGTTTAAGGTTTAGAGATTTAGGATTTAGGATTTTGTATTTAAGGGCTTAAG
11582840 TGACTGTTTA
Statistics
Matches: 58, Mismatches: 4, Indels: 3
0.89 0.06 0.05
Matches are distributed among these distances:
72 7 0.12
73 47 0.81
74 4 0.07
ACGTcount: A:0.24, C:0.01, G:0.28, T:0.47
Consensus pattern (74 bp):
TTTAGGGTTTAAGGTTTAAGGTTTAGAGATTTAGGATTTAGGATTTTGTATTTAAGGGCTTAAGG
GTTTAGTGA
Found at i:11583193 original size:40 final size:40
Alignment explanation
Indices: 11583128--11583296 Score: 205
Period size: 40 Copynumber: 4.2 Consensus size: 40
11583118 ATTTTTTTGT
* * *
11583128 GGCATTTTTCAAAAAGCGCCGCTAATGCTCGACCTATAGC
1 GGCATTTTTCAAAAAGCACCGCTAATGCTCAATCTATAGC
* *
11583168 GGCGTTTTTCAAAAAGCACCACTAATGCTCAATCTATAGC
1 GGCATTTTTCAAAAAGCACCGCTAATGCTCAATCTATAGC
** *
11583208 GGCATTTTTTGAAAAG-AGCCGCTAATGCTCAATCTATAGT
1 GGCATTTTTCAAAAAGCA-CCGCTAATGCTCAATCTATAGC
* * * **
11583248 GGCATTTTTCAGAAAGCGCCGCTAATGCTCGATCTATAAT
1 GGCATTTTTCAAAAAGCACCGCTAATGCTCAATCTATAGC
11583288 GGCATTTTT
1 GGCATTTTT
11583297 ATATAAACTT
Statistics
Matches: 111, Mismatches: 16, Indels: 4
0.85 0.12 0.03
Matches are distributed among these distances:
39 1 0.01
40 110 0.99
ACGTcount: A:0.28, C:0.22, G:0.19, T:0.30
Consensus pattern (40 bp):
GGCATTTTTCAAAAAGCACCGCTAATGCTCAATCTATAGC
Found at i:11591050 original size:42 final size:42
Alignment explanation
Indices: 11590932--11591052 Score: 163
Period size: 43 Copynumber: 2.9 Consensus size: 42
11590922 ACCGTACCAG
* *
11590932 TGCCATATCCTAGATATGGTCTTACATGTAATCTCGTATCGA
1 TGCCATATCCTAGATATGGTCTTACACGTAATCTCATATCGA
* *
11590974 TGCCAATAGCCTA-ACTATGGTCTTACACGAAATCTCATATCGA
1 TGCC-ATATCCTAGA-TATGGTCTTACACGTAATCTCATATCGA
* *
11591017 TGCCATATCCCAGGTATGGTCTTACACGTAATCTCA
1 TGCCATATCCTAGATATGGTCTTACACGTAATCTCA
11591053 ATAACCCTAA
Statistics
Matches: 68, Mismatches: 8, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
42 32 0.47
43 36 0.53
ACGTcount: A:0.28, C:0.25, G:0.16, T:0.31
Consensus pattern (42 bp):
TGCCATATCCTAGATATGGTCTTACACGTAATCTCATATCGA
Found at i:11593565 original size:23 final size:23
Alignment explanation
Indices: 11593538--11593586 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
11593528 CAATTTATTA
11593538 ATTAACATATTTGTTTATGAACT
1 ATTAACATATTTGTTTATGAACT
11593561 ATTAACATATTTGTTTATGAACT
1 ATTAACATATTTGTTTATGAACT
11593584 ATT
1 ATT
11593587 TATTTTCATC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.35, C:0.08, G:0.08, T:0.49
Consensus pattern (23 bp):
ATTAACATATTTGTTTATGAACT
Found at i:11593590 original size:27 final size:27
Alignment explanation
Indices: 11593533--11593590 Score: 79
Period size: 23 Copynumber: 2.3 Consensus size: 27
11593523 AACATCAATT
*
11593533 TATTAATTAACATATTTGTTTATGAAC
1 TATTTATTAACATATTTGTTTATGAAC
11593560 ----TATTAACATATTTGTTTATGAAC
1 TATTTATTAACATATTTGTTTATGAAC
11593583 TATTTATT
1 TATTTATT
11593591 TTCATCCAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 8
0.74 0.03 0.23
Matches are distributed among these distances:
23 22 0.85
27 4 0.15
ACGTcount: A:0.34, C:0.07, G:0.07, T:0.52
Consensus pattern (27 bp):
TATTTATTAACATATTTGTTTATGAAC
Found at i:11597351 original size:137 final size:137
Alignment explanation
Indices: 11597085--11597351 Score: 349
Period size: 137 Copynumber: 1.9 Consensus size: 137
11597075 AATAGGCCTA
* * * * * * *
11597085 CTCACACAAGTTGTCGGTCGGAACGTAGTTATACGATGCTGCTCACACAAGCTGTCGAGTATTCG
1 CTCACACAAGCTATCGGTCGGAACATAGGTACACGATGCTACTCACACAAGCTGTCAAGTATTCG
* * *
11597150 CAACTAATGTCGAACCTCAGCCATCGGTAAGACATTCAAGACCAACACCCAAAACATAGTAACCT
66 CAACTAAAGTCAAACCTCAGCCATCGGTAAGACATTCAAGACCAACACCCAAAACATAGAAACCT
11597215 AGGTTTG
131 AGGTTTG
* *
11597222 CTCACACAAGCTATGGGTCGGAACATAGGTACACGGTGCTACTCACACAAGCTGTCAAGTA-TCT
1 CTCACACAAGCTATCGGTCGGAACATAGGTACACGATGCTACTCACACAAGCTGTCAAGTATTC-
* * * * *
11597286 GCAACTAAAGTCAAAGCTCAGCCATCGGTAGGACATTTCAAGACTAGCACCCAAAAC-TGGAAAC
65 GCAACTAAAGTCAAACCTCAGCCATCGGTAAGACA-TTCAAGACCAACACCCAAAACATAGAAAC
11597350 CT
129 CT
11597352 TAATGACATG
Statistics
Matches: 111, Mismatches: 17, Indels: 4
0.84 0.13 0.03
Matches are distributed among these distances:
136 2 0.02
137 90 0.81
138 19 0.17
ACGTcount: A:0.33, C:0.27, G:0.20, T:0.21
Consensus pattern (137 bp):
CTCACACAAGCTATCGGTCGGAACATAGGTACACGATGCTACTCACACAAGCTGTCAAGTATTCG
CAACTAAAGTCAAACCTCAGCCATCGGTAAGACATTCAAGACCAACACCCAAAACATAGAAACCT
AGGTTTG
Found at i:11597750 original size:70 final size:70
Alignment explanation
Indices: 11597676--11597819 Score: 261
Period size: 70 Copynumber: 2.1 Consensus size: 70
11597666 ACAATAAAAT
*
11597676 AATTCATTTTATGCAATTTAGTCATTTTTTAAATTTTTAAAAAATTACCCCTAAATTTTTACTTT
1 AATTCATTTTATGCAATTTAGTCATTTTTGAAATTTTTAAAAAATTACCCCTAAATTTTTACTTT
11597741 TATTC
66 TATTC
* *
11597746 AATTCATTTTATGCAATTTATTCATTTTTGAAATTTTTAAAAAATTGCCCCTAAATTTTTACTTT
1 AATTCATTTTATGCAATTTAGTCATTTTTGAAATTTTTAAAAAATTACCCCTAAATTTTTACTTT
11597811 TATTC
66 TATTC
11597816 AATT
1 AATT
11597820 TAGTCCCTAA
Statistics
Matches: 71, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
70 71 1.00
ACGTcount: A:0.33, C:0.12, G:0.03, T:0.51
Consensus pattern (70 bp):
AATTCATTTTATGCAATTTAGTCATTTTTGAAATTTTTAAAAAATTACCCCTAAATTTTTACTTT
TATTC
Found at i:11599812 original size:42 final size:42
Alignment explanation
Indices: 11599754--11599870 Score: 119
Period size: 43 Copynumber: 2.8 Consensus size: 42
11599744 AGGGTTATTT
** * * *
11599754 GAGATTATGTGTAAGACTATATCTAGGATATGACATCGATAT
1 GAGATTACATGTAAGACCATATCTAGGATATGACATCAATAC
* *
11599796 GAGACTT-CATGTAAGACCATAGCTAGGATATTGGCATCAATAC
1 GAGA-TTACATGTAAGACCATATCTAGGATA-TGACATCAATAC
* * *
11599839 GAGATTACAGGTAAGACCATATTTGGGATATG
1 GAGATTACATGTAAGACCATATCTAGGATATG
11599871 GCATTGGTAC
Statistics
Matches: 61, Mismatches: 11, Indels: 6
0.78 0.14 0.08
Matches are distributed among these distances:
42 27 0.44
43 34 0.56
ACGTcount: A:0.35, C:0.13, G:0.23, T:0.29
Consensus pattern (42 bp):
GAGATTACATGTAAGACCATATCTAGGATATGACATCAATAC
Found at i:11611520 original size:27 final size:26
Alignment explanation
Indices: 11611465--11611695 Score: 130
Period size: 27 Copynumber: 8.5 Consensus size: 26
11611455 TTATGATACA
* * * *
11611465 CCACAGAGGCTTTCCTTTCACATTATG
1 CCACAAAGGCTTTTCTTTCAGAAT-TG
*
11611492 CCACAAAGGCATTTCTTTTCAGAATTG
1 CCACAAAGGCTTTTC-TTTCAGAATTG
* *
11611519 CCACCAAGACTTTTCTTTCA-AATTACG
1 CCACAAAGGCTTTTCTTTCAGAATT--G
* ** * *
11611546 TCACAGGGGCATTTACTTTCATGAATTA
1 CCACAAAGGC-TTTTCTTTCA-GAATTG
*
11611574 CCACAAAGGCTTTTCATTCAG-ATTG
1 CCACAAAGGCTTTTCTTTCAGAATTG
** * *
11611599 CGTCATTAGGGCTTTCCTTTCATGAATTG
1 C--CACAAAGGCTTTTCTTTCA-GAATTG
*
11611628 CCATAAAGGCTTTTCATTT-AG-ATTG
1 CCACAAAGGCTTTTC-TTTCAGAATTG
*
11611653 CGC-CATTAGGGCTTTTCTTTCATGAATTG
1 C-CACA--AAGGCTTTTCTTTCA-GAATTG
11611682 CCACAAAGGCTTTT
1 CCACAAAGGCTTTT
11611696 AAATCTAAAA
Statistics
Matches: 154, Mismatches: 32, Indels: 36
0.69 0.14 0.16
Matches are distributed among these distances:
25 14 0.09
26 11 0.07
27 84 0.55
28 29 0.19
29 12 0.08
30 4 0.03
ACGTcount: A:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (26 bp):
CCACAAAGGCTTTTCTTTCAGAATTG
Found at i:11611603 original size:55 final size:53
Alignment explanation
Indices: 11611503--11611695 Score: 228
Period size: 54 Copynumber: 3.6 Consensus size: 53
11611493 CACAAAGGCA
* * * * * *
11611503 TTTCTTTTCA-GAATTGCCACCAAGACTTTTCTTTCAAATTACGTCA-CAGGGGC
1 TTTC-TTTCATGAATTGCCACAAAGGCTTTTCATTCAGATTGCGTCATTA-GGGC
*
11611556 ATTTACTTTCATGAATTACCACAAAGGCTTTTCATTCAGATTGCGTCATTAGGGC
1 -TTT-CTTTCATGAATTGCCACAAAGGCTTTTCATTCAGATTGCGTCATTAGGGC
* * *
11611611 TTTCCTTTCATGAATTGCCATAAAGGCTTTTCATTTAGATTGCGCCATTAGGGC
1 TTT-CTTTCATGAATTGCCACAAAGGCTTTTCATTCAGATTGCGTCATTAGGGC
11611665 TTTTCTTTCATGAATTGCCACAAAGGCTTTT
1 -TTTCTTTCATGAATTGCCACAAAGGCTTTT
11611696 AAATCTAAAA
Statistics
Matches: 122, Mismatches: 13, Indels: 8
0.85 0.09 0.06
Matches are distributed among these distances:
54 83 0.68
55 38 0.31
56 1 0.01
ACGTcount: A:0.24, C:0.21, G:0.16, T:0.38
Consensus pattern (53 bp):
TTTCTTTCATGAATTGCCACAAAGGCTTTTCATTCAGATTGCGTCATTAGGGC
Found at i:11611779 original size:29 final size:29
Alignment explanation
Indices: 11611715--11611844 Score: 115
Period size: 29 Copynumber: 4.6 Consensus size: 29
11611705 AATTTCCATG
* *
11611715 AGGC-TTCCTTTATCAGAGG-TTGCCACAA
1 AGGCTTTCCTTTA-CAGAGGTTTACCATAA
* * *
11611743 AGACTTTCCTTT-CAGAGGCTCACCATAA
1 AGGCTTTCCTTTACAGAGGTTTACCATAA
* * *
11611771 AGGCTTTTCTTTATAGAGGTTTGCCATAA
1 AGGCTTTCCTTTACAGAGGTTTACCATAA
* * *
11611800 AGGCTCTCCTTTATAGAGGTTTTCCATAA
1 AGGCTTTCCTTTACAGAGGTTTACCATAA
*
11611829 AGCCTTTCCTTT-CAGA
1 AGGCTTTCCTTTACAGA
11611845 TACGCCACAA
Statistics
Matches: 83, Mismatches: 16, Indels: 6
0.79 0.15 0.06
Matches are distributed among these distances:
27 6 0.07
28 22 0.27
29 55 0.66
ACGTcount: A:0.25, C:0.23, G:0.18, T:0.35
Consensus pattern (29 bp):
AGGCTTTCCTTTACAGAGGTTTACCATAA
Found at i:11613434 original size:25 final size:20
Alignment explanation
Indices: 11613387--11613427 Score: 82
Period size: 20 Copynumber: 2.0 Consensus size: 20
11613377 TGAAAGCACG
11613387 TGACCATTGCATACAATACA
1 TGACCATTGCATACAATACA
11613407 TGACCATTGCATACAATACA
1 TGACCATTGCATACAATACA
11613427 T
1 T
11613428 CCCATGAAGG
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
20 21 1.00
ACGTcount: A:0.39, C:0.24, G:0.10, T:0.27
Consensus pattern (20 bp):
TGACCATTGCATACAATACA
Found at i:11615388 original size:17 final size:19
Alignment explanation
Indices: 11615346--11615389 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11615336 ATGAAATTTT
*
11615346 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
11615365 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
11615383 AA-TATTA
1 AATTATTA
11615390 CTATATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:11617666 original size:17 final size:19
Alignment explanation
Indices: 11617624--11617667 Score: 56
Period size: 19 Copynumber: 2.4 Consensus size: 19
11617614 ATGAAATTTT
*
11617624 AATTAGTATTATGAGATAA
1 AATTATTATTATGAGATAA
*
11617643 AATTATTATTATTAGA-AA
1 AATTATTATTATGAGATAA
11617661 AA-TATTA
1 AATTATTA
11617668 CTATATGTAT
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
17 5 0.22
18 4 0.17
19 14 0.61
ACGTcount: A:0.50, C:0.00, G:0.09, T:0.41
Consensus pattern (19 bp):
AATTATTATTATGAGATAA
Found at i:11620019 original size:151 final size:151
Alignment explanation
Indices: 11619745--11620046 Score: 595
Period size: 151 Copynumber: 2.0 Consensus size: 151
11619735 TGTGGAATTG
11619745 AAACTACTTAAACCGGTAAACTGGTCATAAAACTTAAATTAAATGGGCTTAAATTGCTAGTGGAC
1 AAACTACTTAAACCGGTAAACTGGTCATAAAACTTAAATTAAATGGGCTTAAATTGCTAGTGGAC
11619810 ACTGTAGGGCCATTATGGGTTTTAGGGCCCAATGGCTAAAATTGTGAAATTGAGACAAATAAATT
66 ACTGTAGGGCCATTATGGGTTTTAGGGCCCAATGGCTAAAATTGTGAAATTGAGACAAATAAATT
11619875 ATTGCGATGACAAATGAGCTA
131 ATTGCGATGACAAATGAGCTA
*
11619896 AAACTGCTTAAACCGGTAAACTGGTCATAAAACTTAAATTAAATGGGCTTAAATTGCTAGTGGAC
1 AAACTACTTAAACCGGTAAACTGGTCATAAAACTTAAATTAAATGGGCTTAAATTGCTAGTGGAC
11619961 ACTGTAGGGCCATTATGGGTTTTAGGGCCCAATGGCTAAAATTGTGAAATTGAGACAAATAAATT
66 ACTGTAGGGCCATTATGGGTTTTAGGGCCCAATGGCTAAAATTGTGAAATTGAGACAAATAAATT
11620026 ATTGCGATGACAAATGAGCTA
131 ATTGCGATGACAAATGAGCTA
11620047 GTAAGGACCG
Statistics
Matches: 150, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
151 150 1.00
ACGTcount: A:0.37, C:0.14, G:0.22, T:0.28
Consensus pattern (151 bp):
AAACTACTTAAACCGGTAAACTGGTCATAAAACTTAAATTAAATGGGCTTAAATTGCTAGTGGAC
ACTGTAGGGCCATTATGGGTTTTAGGGCCCAATGGCTAAAATTGTGAAATTGAGACAAATAAATT
ATTGCGATGACAAATGAGCTA
Found at i:11626253 original size:16 final size:18
Alignment explanation
Indices: 11626227--11626259 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
11626217 TTTAATTAAC
11626227 TAAATTAA-TTTCTCAAT
1 TAAATTAATTTTCTCAAT
11626244 TAAA-TAATTTTCTCAA
1 TAAATTAATTTTCTCAA
11626260 GTCAATTCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 3 0.20
17 12 0.80
ACGTcount: A:0.42, C:0.12, G:0.00, T:0.45
Consensus pattern (18 bp):
TAAATTAATTTTCTCAAT
Found at i:11629109 original size:3 final size:3
Alignment explanation
Indices: 11629101--11629139 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
11629091 AATGGGTTTC
11629101 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
1 CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT CTT
11629140 AATTTGGGGC
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.00, C:0.33, G:0.00, T:0.67
Consensus pattern (3 bp):
CTT
Found at i:11652102 original size:124 final size:123
Alignment explanation
Indices: 11651860--11652102 Score: 400
Period size: 122 Copynumber: 2.0 Consensus size: 123
11651850 CCGTACTACT
* *
11651860 TGTATTAACTATACCATTTTTCTTATCTTGGTACTTAATTGTTTTTTTTGTCACAAGTGATACCC
1 TGTATTAACTATACCATTTTTCTCATCTTGGTACTTAATTG-TTTTTTTGTCACAAGTAATACCC
** *
11651925 TTTTTGCTTTAGTTAGTACCTCCGTTAGTCAAACAATTGAATCTATTTTAAAAAAAATA
65 TTTTTGCCCTAGTTAGTACCTCCGTTAGTCAAACAATTAAATCTATTTTAAAAAAAATA
*
11651984 TGTATTAACTATACCATTTTTCTCATCTTGGTACTTAATTG-TTTTTTGTCACAAGTAATACCTT
1 TGTATTAACTATACCATTTTTCTCATCTTGGTACTTAATTGTTTTTTTGTCACAAGTAATACCCT
11652048 TTTTGCCCTAGTT-GTTACCTCCGTTAGTCAAACAATTAAATCTATTTTAAAAAAA
66 TTTTGCCCTAGTTAG-TACCTCCGTTAGTCAAACAATTAAATCTATTTTAAAAAAA
11652103 GATAAATTAT
Statistics
Matches: 112, Mismatches: 6, Indels: 4
0.92 0.05 0.03
Matches are distributed among these distances:
121 1 0.01
122 71 0.63
124 40 0.36
ACGTcount: A:0.29, C:0.16, G:0.10, T:0.44
Consensus pattern (123 bp):
TGTATTAACTATACCATTTTTCTCATCTTGGTACTTAATTGTTTTTTTGTCACAAGTAATACCCT
TTTTGCCCTAGTTAGTACCTCCGTTAGTCAAACAATTAAATCTATTTTAAAAAAAATA
Found at i:11652533 original size:19 final size:20
Alignment explanation
Indices: 11652500--11652542 Score: 54
Period size: 19 Copynumber: 2.2 Consensus size: 20
11652490 ATTTATTTAT
11652500 TAAAATAATAC-TTTTATAAA
1 TAAAATAATACTTTTTA-AAA
*
11652520 TAAAA-AATATTTTTTAAAA
1 TAAAATAATACTTTTTAAAA
11652539 TAAA
1 TAAA
11652543 TTCGTACAAA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
19 11 0.52
20 10 0.48
ACGTcount: A:0.58, C:0.02, G:0.00, T:0.40
Consensus pattern (20 bp):
TAAAATAATACTTTTTAAAA
Found at i:11655543 original size:3 final size:3
Alignment explanation
Indices: 11655535--11655575 Score: 82
Period size: 3 Copynumber: 13.7 Consensus size: 3
11655525 TCTTGCTATT
11655535 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
1 TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TTC TT
11655576 TTCACTATTT
Statistics
Matches: 38, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 38 1.00
ACGTcount: A:0.00, C:0.32, G:0.00, T:0.68
Consensus pattern (3 bp):
TTC
Found at i:11657555 original size:19 final size:19
Alignment explanation
Indices: 11657515--11657556 Score: 50
Period size: 19 Copynumber: 2.2 Consensus size: 19
11657505 AGAAAAAAAG
*
11657515 GAAAAAAAATAGAAGAATA
1 GAAAAAAAATAGAAGAAGA
*
11657534 GAAAAAAAAT-GGAGAAGGA
1 GAAAAAAAATAGAAGAA-GA
11657553 GAAA
1 GAAA
11657557 TAATGTAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
18 5 0.25
19 15 0.75
ACGTcount: A:0.69, C:0.00, G:0.24, T:0.07
Consensus pattern (19 bp):
GAAAAAAAATAGAAGAAGA
Found at i:11658789 original size:23 final size:22
Alignment explanation
Indices: 11658742--11658790 Score: 62
Period size: 23 Copynumber: 2.2 Consensus size: 22
11658732 GCCTTTTTGA
*
11658742 ATTAAATTGATTAGGATTTTAG
1 ATTAAATTGATTAGGAGTTTAG
* *
11658764 ATTAATTTGATTAAGGGGTTTAG
1 ATTAAATTGATT-AGGAGTTTAG
11658787 ATTA
1 ATTA
11658791 GGATTTAAAT
Statistics
Matches: 23, Mismatches: 3, Indels: 1
0.85 0.11 0.04
Matches are distributed among these distances:
22 11 0.48
23 12 0.52
ACGTcount: A:0.35, C:0.00, G:0.20, T:0.45
Consensus pattern (22 bp):
ATTAAATTGATTAGGAGTTTAG
Found at i:11659962 original size:58 final size:58
Alignment explanation
Indices: 11659854--11659971 Score: 218
Period size: 58 Copynumber: 2.0 Consensus size: 58
11659844 AAAATTCAAA
* *
11659854 ATATAATTGAATGTAGAAATTTAAACATGATTTATATATAACCAAGCTTAATCTCTAG
1 ATATAATTGAATGTAGAAATTTAAACATGATTTATATATAACCAAACTTAAACTCTAG
11659912 ATATAATTGAATGTAGAAATTTAAACATGATTTATATATAACCAAACTTAAACTCTAG
1 ATATAATTGAATGTAGAAATTTAAACATGATTTATATATAACCAAACTTAAACTCTAG
11659970 AT
1 AT
11659972 TAAAAAGTCA
Statistics
Matches: 58, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 58 1.00
ACGTcount: A:0.45, C:0.10, G:0.09, T:0.36
Consensus pattern (58 bp):
ATATAATTGAATGTAGAAATTTAAACATGATTTATATATAACCAAACTTAAACTCTAG
Found at i:11668344 original size:80 final size:80
Alignment explanation
Indices: 11668249--11668410 Score: 209
Period size: 80 Copynumber: 2.0 Consensus size: 80
11668239 TATTGTCTAG
* * * *
11668249 ATGCACATACGTGCCCCTGTTTGTACTTCGATA-CCTCTGAATGTACACACGTGCCCTTGATTAT
1 ATGCACATACATGCCCCTGATTGTACTTCGATATCC-CTGAATGCACACACATGCCCTTGATTAT
*
11668313 ACTTCAGTACCCCTGA
65 ACTTCAGTAACCCTGA
* ** *
11668329 ATGCACATACATGCCCTTGATTGTACTTCGATATCCCTGAATGCACATGCATGCCCTTGTTTATA
1 ATGCACATACATGCCCCTGATTGTACTTCGATATCCCTGAATGCACACACATGCCCTTGATTATA
**
11668394 CTTTGGTAACCCTGA
66 CTTCAGTAACCCTGA
11668409 AT
1 AT
11668411 CAAATAGTAT
Statistics
Matches: 70, Mismatches: 11, Indels: 2
0.84 0.13 0.02
Matches are distributed among these distances:
80 68 0.97
81 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (80 bp):
ATGCACATACATGCCCCTGATTGTACTTCGATATCCCTGAATGCACACACATGCCCTTGATTATA
CTTCAGTAACCCTGA
Found at i:11668376 original size:40 final size:39
Alignment explanation
Indices: 11668249--11668410 Score: 164
Period size: 40 Copynumber: 4.1 Consensus size: 39
11668239 TATTGTCTAG
* * * *
11668249 ATGCACATACGTGCCCCTGTTTGTACTTCGATACCTCTGA
1 ATGCACATACATGCCCTTGATTATACTTCGATACC-CTGA
* * *
11668289 ATGTACACACGTGCCCTTGATTATACTTC-AGTACCCCTGA
1 ATGCACATACATGCCCTTGATTATACTTCGA-TA-CCCTGA
*
11668329 ATGCACATACATGCCCTTGATTGTACTTCGATATCCCTGA
1 ATGCACATACATGCCCTTGATTATACTTCGATA-CCCTGA
* * * *
11668369 ATGCACATGCATGCCCTTGTTTATACTTTGGTAACCCTGA
1 ATGCACATACATGCCCTTGATTATACTTCGAT-ACCCTGA
11668409 AT
1 AT
11668411 CAAATAGTAT
Statistics
Matches: 103, Mismatches: 15, Indels: 8
0.82 0.12 0.06
Matches are distributed among these distances:
39 1 0.01
40 98 0.95
41 4 0.04
ACGTcount: A:0.23, C:0.28, G:0.16, T:0.33
Consensus pattern (39 bp):
ATGCACATACATGCCCTTGATTATACTTCGATACCCTGA
Found at i:11671871 original size:47 final size:47
Alignment explanation
Indices: 11671816--11671946 Score: 181
Period size: 47 Copynumber: 2.8 Consensus size: 47
11671806 CACAATCGAT
* * *
11671816 AAGTACCTATACCATGGCCCATAGCCAAATCAAGGTAACTTATCCCG
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* * *
11671863 GAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCCTCTCA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
* **
11671910 AAATACCTATGTCATGGCCCGTAGCCAAATCAAGGTA
1 AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTA
11671947 TTATTCGCAC
Statistics
Matches: 74, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
47 74 1.00
ACGTcount: A:0.33, C:0.29, G:0.17, T:0.21
Consensus pattern (47 bp):
AAGTACCTATACCATGGCCCGTAGCCAAATCAAGGTAACTCATCCCA
Found at i:11683521 original size:46 final size:48
Alignment explanation
Indices: 11683454--11683614 Score: 163
Period size: 47 Copynumber: 3.4 Consensus size: 48
11683444 GGTAAGGTGC
*
11683454 CGATGCCATGTCCAAGACATGGCTTACACTGGCTCAT-ATCTC-AAGT
1 CGATGCCATGTCCCAGACATGGCTTACACTGGCTCATCATCTCAAAGT
* **
11683500 CGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCGTAG-
1 CGATGCCATGTCCCAGACATGG-CTTACACTGGCTCATCATCTCAAAGT
* * * * *
11683547 CTGATG-CATGTCCCAGACATGTCCTACGCTAGCTC-TCGTCTCAAAGT
1 C-GATGCCATGTCCCAGACATGGCTTACACTGGCTCATCATCTCAAAGT
* *
11683594 TGATGCCATGTCACAGACATG
1 CGATGCCATGTCCCAGACATG
11683615 ATCTTATCTT
Statistics
Matches: 95, Mismatches: 13, Indels: 13
0.79 0.11 0.11
Matches are distributed among these distances:
46 43 0.45
47 46 0.48
48 6 0.06
ACGTcount: A:0.24, C:0.29, G:0.20, T:0.27
Consensus pattern (48 bp):
CGATGCCATGTCCCAGACATGGCTTACACTGGCTCATCATCTCAAAGT
Found at i:11688219 original size:75 final size:74
Alignment explanation
Indices: 11688116--11688265 Score: 255
Period size: 75 Copynumber: 2.0 Consensus size: 74
11688106 TGCCTCGAGG
*
11688116 ATTGGACACTTCATTACAAACTCAGTGGAATCTACTAGCATACTCATACGAGGTATCAAATCCAT
1 ATTGGACACTTCATTAAAAACTCAGTGGAATCTACTAGCATACTCATACGAGGTATCAAATCCAT
11688181 ACAAATATA
66 ACAAATATA
* * *
11688190 ATTGGACACTTTTATTAAAAACTTAGTGGAATCTACTAGCATACTCATACGAGGTATCAATTCCA
1 ATTGGACAC-TTCATTAAAAACTCAGTGGAATCTACTAGCATACTCATACGAGGTATCAAATCCA
11688255 TACAAATATA
65 TACAAATATA
11688265 A
1 A
11688266 GAGTGAGTAG
Statistics
Matches: 71, Mismatches: 4, Indels: 1
0.93 0.05 0.01
Matches are distributed among these distances:
74 9 0.13
75 62 0.87
ACGTcount: A:0.39, C:0.19, G:0.12, T:0.29
Consensus pattern (74 bp):
ATTGGACACTTCATTAAAAACTCAGTGGAATCTACTAGCATACTCATACGAGGTATCAAATCCAT
ACAAATATA
Found at i:11692752 original size:21 final size:20
Alignment explanation
Indices: 11692714--11692752 Score: 51
Period size: 21 Copynumber: 1.9 Consensus size: 20
11692704 TCCTTAAAAC
* *
11692714 AGGGCACACGCCCTTGTGGT
1 AGGGCACACACCCATGTGGT
11692734 AGGGCAACACACCCATGTG
1 AGGGC-ACACACCCATGTG
11692753 ACCAACTCGA
Statistics
Matches: 16, Mismatches: 2, Indels: 1
0.84 0.11 0.05
Matches are distributed among these distances:
20 5 0.31
21 11 0.69
ACGTcount: A:0.23, C:0.31, G:0.31, T:0.15
Consensus pattern (20 bp):
AGGGCACACACCCATGTGGT
Found at i:11693944 original size:46 final size:47
Alignment explanation
Indices: 11693856--11694210 Score: 291
Period size: 46 Copynumber: 7.6 Consensus size: 47
11693846 GTAAGGTGCT
* * * *
11693856 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTA-GCC
1 GATG-CATGTCCCAGACAT-GTCTTACACAGGCTCTCGTCTCGTAGGCC
11693904 GATGCATGTCCCAGACATGTCTTACACAGGCT-TACGTCTCG-AGGCC
1 GATGCATGTCCCAGACATGTCTTACACAGGCTCT-CGTCTCGTAGGCC
* ** * * * *
11693950 GATGCATGTCCTAGACATGTCTTATGCTA-GCTGTCGTCTC-AATGCT
1 GATGCATGTCCCAGACATGTCTTACAC-AGGCTCTCGTCTCGTAGGCC
* * * **
11693996 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACGT-GGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACAGGCTCTCGTCTCGTAGGCC
11694044 GATGCATGTCCCAGACATGTCTTACACAGGCT-TACGTCTCG-AGGCC
1 GATGCATGTCCCAGACATGTCTTACACAGGCTCT-CGTCTCGTAGGCC
* ** * * * *
11694090 GATGCATGTCCTAGACATGTCTTATGCTA-GCTGTCGTCTC-AATGCT
1 GATGCATGTCCCAGACATGTCTTACAC-AGGCTCTCGTCTCGTAGGCC
* * * **
11694136 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACGT-GGCC
1 GATG-CATGTCCCAGACAT-GTCTTACACAGGCTCTCGTCTCGTAGGCC
11694184 GATGCATGTCCCAGACATGTCTTACAC
1 GATGCATGTCCCAGACATGTCTTACAC
11694211 TAGCTCACAA
Statistics
Matches: 246, Mismatches: 43, Indels: 38
0.75 0.13 0.12
Matches are distributed among these distances:
45 3 0.01
46 131 0.53
47 68 0.28
48 44 0.18
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (47 bp):
GATGCATGTCCCAGACATGTCTTACACAGGCTCTCGTCTCGTAGGCC
Found at i:11694104 original size:140 final size:140
Alignment explanation
Indices: 11693852--11694210 Score: 664
Period size: 140 Copynumber: 2.6 Consensus size: 140
11693842 GTGGGTAAGG
* * * ** *
11693852 TGCTGATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTCCCA
1 TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCATGTCCCA
11693917 GACATGTCTTACACAGGCTTACGTCTCGAGGCCGATGCATGTCCTAGACATGTCTTATGCTAGCT
66 GACATGTCTTACACAGGCTTACGTCTCGAGGCCGATGCATGTCCTAGACATGTCTTATGCTAGCT
11693982 GTCGTCTCAA
131 GTCGTCTCAA
11693992 TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCATGTCCCA
1 TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCATGTCCCA
11694057 GACATGTCTTACACAGGCTTACGTCTCGAGGCCGATGCATGTCCTAGACATGTCTTATGCTAGCT
66 GACATGTCTTACACAGGCTTACGTCTCGAGGCCGATGCATGTCCTAGACATGTCTTATGCTAGCT
11694122 GTCGTCTCAA
131 GTCGTCTCAA
11694132 TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCATGTCCCA
1 TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCATGTCCCA
11694197 GACATGTCTTACAC
66 GACATGTCTTACAC
11694211 TAGCTCACAA
Statistics
Matches: 213, Mismatches: 6, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
140 213 1.00
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (140 bp):
TGCTGATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCATGTCCCA
GACATGTCTTACACAGGCTTACGTCTCGAGGCCGATGCATGTCCTAGACATGTCTTATGCTAGCT
GTCGTCTCAA
Found at i:11694214 original size:94 final size:89
Alignment explanation
Indices: 11693856--11694215 Score: 310
Period size: 94 Copynumber: 3.9 Consensus size: 89
11693846 GTAAGGTGCT
* *
11693856 GATGCCATGTCCCAGACATGGTCTTACACTGACTATCATCTCGTAGCCGATGCATGTCCCAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCATCTCGTGGCCGATGCATGTCCCAGACA
*
11693921 TGTCTTACAC-AGGCTTACGTCTCGAGGCC
63 TGTCTTACACTA-GCTT-CGTCTC-ATGCC
* ** * * * * *
11693950 GATGCATGTCCTAGACATGTCTTATGCTAGCTGTCGTCTCAAT-GCTGATGCCATGTCCCAAACA
1 GATGCATGTCCCAGACATGTCTTACACTGGCT-TCATCTC-GTGGCCGATG-CATGTCCCAGACA
* * ** *
11694014 TGGTCTTACACTGGCTCTCATAACGTGGCC
63 T-GTCTTACACTAGCT-TCGTCTCAT-GCC
* * * *
11694044 GATGCATGTCCCAGACATGTCTTACACAGGCTTACGTCTCGAGGCCGATGCATGTCCTAGACATG
1 GATGCATGTCCCAGACATGTCTTACACTGGCTT-CATCTCGTGGCCGATGCATGTCCCAGACATG
** *
11694109 TCTTATGCTAGCTGTCGTCTCAATGCT
65 TCTTACACTAGCT-TCGTCTC-ATGCC
* **
11694136 GATGCCATGTCCCAAACATGGTCTTACACTGGCTCTCATAACGTGGCCGATGCATGTCCCAGACA
1 GATG-CATGTCCCAGACAT-GTCTTACACTGGCT-TCATCTCGTGGCCGATGCATGTCCCAGACA
11694201 TGTCTTACACTAGCT
63 TGTCTTACACTAGCT
11694216 CACAAACAAA
Statistics
Matches: 210, Mismatches: 44, Indels: 24
0.76 0.16 0.09
Matches are distributed among these distances:
92 43 0.20
93 54 0.26
94 111 0.53
95 2 0.01
ACGTcount: A:0.22, C:0.29, G:0.21, T:0.28
Consensus pattern (89 bp):
GATGCATGTCCCAGACATGTCTTACACTGGCTTCATCTCGTGGCCGATGCATGTCCCAGACATGT
CTTACACTAGCTTCGTCTCATGCC
Found at i:11700029 original size:50 final size:49
Alignment explanation
Indices: 11699906--11700096 Score: 220
Period size: 50 Copynumber: 3.8 Consensus size: 49
11699896 TGTGAGGTTG
* * * * * *
11699906 CATGTGCAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCA
* **
11699957 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTATCAGATGGTTAGGTCA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCA
* * *
11700007 CGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCG
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
* * *
11700056 CATGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
11700097 GCTTTGGCTA
Statistics
Matches: 119, Mismatches: 20, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
49 41 0.34
50 44 0.37
51 34 0.29
ACGTcount: A:0.27, C:0.19, G:0.26, T:0.28
Consensus pattern (49 bp):
CATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCA
Found at i:11700095 original size:99 final size:101
Alignment explanation
Indices: 11699908--11700095 Score: 263
Period size: 99 Copynumber: 1.9 Consensus size: 101
11699898 TGAGGTTGCA
*
11699908 TGTGCAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTATGATCACATGTGTAGTACTAAG
1 TGTGCAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTATGATCACATGTGTAGTACTAAG
* *
11699973 TGCAGGCTACTACGTGTATCAGATGGTTAGGTCACG
66 TGCAGGCTACTACGCGTACCAGATGGTTAGGTCACG
* * * * * * *
11700009 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAA-T-TGGTCGCATGTGTAGTACTATG
1 TGTGCAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTATGATCACATGTGTAGTACTAAG
*
11700072 TGCAGGCTACTATGCGTACCAGAT
66 TGCAGGCTACTACGCGTACCAGAT
11700096 AGCTTTGGCT
Statistics
Matches: 76, Mismatches: 11, Indels: 2
0.85 0.12 0.02
Matches are distributed among these distances:
99 40 0.53
100 1 0.01
101 35 0.46
ACGTcount: A:0.26, C:0.19, G:0.27, T:0.28
Consensus pattern (101 bp):
TGTGCAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTATGATCACATGTGTAGTACTAAG
TGCAGGCTACTACGCGTACCAGATGGTTAGGTCACG
Found at i:11703255 original size:39 final size:40
Alignment explanation
Indices: 11703160--11703421 Score: 337
Period size: 39 Copynumber: 6.7 Consensus size: 40
11703150 TTGAATGATG
*
11703160 TCCGGGCTAAGTCCCGAAGGC--TTGTGCTA-AGTGAC-AAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-T-ACTAAT
*
11703198 ATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGATACTAAT
11703239 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
11703278 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
* *
11703317 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
*
11703356 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGA-ATTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGA-TACTAAT
* *
11703395 AACCGGGCTATGTCCCGAAGGCATTTG
1 -TCCGGGCTAAGTCCCGAAGGCATTTG
11703422 AACGAGGAGC
Statistics
Matches: 203, Mismatches: 11, Indels: 17
0.88 0.05 0.07
Matches are distributed among these distances:
39 132 0.65
40 59 0.29
41 11 0.05
42 1 0.00
ACGTcount: A:0.26, C:0.23, G:0.27, T:0.24
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGATACTAAT
Found at i:11706059 original size:42 final size:42
Alignment explanation
Indices: 11706012--11706115 Score: 172
Period size: 42 Copynumber: 2.5 Consensus size: 42
11706002 TATCGGGATG
* * *
11706012 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
*
11706054 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
11706096 TGAGATTCGTGTAAGACCAT
1 TGAGATTCGTGTAAGACCAT
11706116 AGCTAAGCTA
Statistics
Matches: 58, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
42 58 1.00
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGACTAGGACATTGGCATCGATA
Found at i:11706129 original size:42 final size:42
Alignment explanation
Indices: 11706012--11706137 Score: 159
Period size: 42 Copynumber: 3.0 Consensus size: 42
11706002 TATCGGGATG
* * ** *
11706012 TGAGATTCATGTAAGACCATGACTGGGACATTTGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
*
11706054 TGAGATTCGTGTAAGACCATGTCTAGGACATTGGCATCGATA
1 TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
11706096 TGAGATTCGTGTAAGACCATAG-CTAAG-CTATTGG-ATCGATA
1 TGAGATTCGTGTAAGACCAT-GTCTAAGAC-ATTGGCATCGATA
11706137 T
1 T
11706138 ACTATAACAT
Statistics
Matches: 77, Mismatches: 5, Indels: 5
0.89 0.06 0.06
Matches are distributed among these distances:
41 9 0.12
42 67 0.87
43 1 0.01
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (42 bp):
TGAGATTCGTGTAAGACCATGTCTAAGACATTGGCATCGATA
Found at i:11707050 original size:21 final size:21
Alignment explanation
Indices: 11707024--11707080 Score: 60
Period size: 24 Copynumber: 2.5 Consensus size: 21
11707014 ATGGTATAAG
11707024 GTTGATGAATTGGTACATTTT
1 GTTGATGAATTGGTACATTTT
*
11707045 GTTGATGATGAATTGGTATATTTT
1 G-T--TGATGAATTGGTACATTTT
*
11707069 GTGGCATGAATT
1 GTTG-ATGAATT
11707081 ATATGATAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 7
0.77 0.05 0.18
Matches are distributed among these distances:
21 2 0.07
22 8 0.27
23 1 0.03
24 19 0.63
ACGTcount: A:0.25, C:0.04, G:0.26, T:0.46
Consensus pattern (21 bp):
GTTGATGAATTGGTACATTTT
Found at i:11713370 original size:29 final size:28
Alignment explanation
Indices: 11713334--11713411 Score: 104
Period size: 29 Copynumber: 2.7 Consensus size: 28
11713324 TCATGAGATT
11713334 GGCACTAAGTGTGCGGGTTTAAATTGTACA
1 GGCACTAAGTGTGCGGGTTTAAA--GTACA
*
11713364 -GCACTAAGTGTGCGAGTTTAAAGTACA
1 GGCACTAAGTGTGCGGGTTTAAAGTACA
11713391 TGGCACTAAGTGTGCGTGGTT
1 -GGCACTAAGTGTGCG-GGTT
11713412 GATTATTAAG
Statistics
Matches: 43, Mismatches: 2, Indels: 6
0.84 0.04 0.12
Matches are distributed among these distances:
27 5 0.12
29 35 0.81
30 3 0.07
ACGTcount: A:0.26, C:0.14, G:0.31, T:0.29
Consensus pattern (28 bp):
GGCACTAAGTGTGCGGGTTTAAAGTACA
Found at i:11713629 original size:174 final size:174
Alignment explanation
Indices: 11713364--11713691 Score: 602
Period size: 174 Copynumber: 1.9 Consensus size: 174
11713354 AAATTGTACA
*
11713364 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGTGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
* * *
11713429 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATTAAGGGTGCGACCTTATCGAGTCGA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
11713494 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
131 TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
*
11713538 GCACTAAGTGTGTGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
1 GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
*
11713603 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACTTTACCGAGTCAA
66 TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
11713668 TTTTGGACAGCGGAAAAGGTAAGT
131 TTTTGGACAGCGGAAAAGGTAAGT
11713692 ACCTTGAGTT
Statistics
Matches: 148, Mismatches: 6, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
174 148 1.00
ACGTcount: A:0.30, C:0.14, G:0.24, T:0.31
Consensus pattern (174 bp):
GCACTAAGTGTGCGAGTTTAAAGTACATGGCACTAAGTGTGCGCGGTTGATTATTAAGCACTATG
TGTGCGAACCCAATATATATTTTCTATAAATTATTTACATGAAGGGTGCGACCTTACCGAGTCAA
TTTTGGACAGCGGAAAAGGTAAGTGTGCGAACTTGAAATGCATG
Found at i:11718414 original size:479 final size:479
Alignment explanation
Indices: 11717517--11718475 Score: 1918
Period size: 479 Copynumber: 2.0 Consensus size: 479
11717507 AATTTTAATG
11717517 AATAAACTGTACTAATTGGCTAAACCAAAAATTCTATAAATTTTATGGGAGAAAGGTATATGAGT
1 AATAAACTGTACTAATTGGCTAAACCAAAAATTCTATAAATTTTATGGGAGAAAGGTATATGAGT
11717582 TTAGTTTCGAGGAAAATTAACGAAACTTAATTTGGAGTCTCGTAGCTCCAAATATAAATGAATTA
66 TTAGTTTCGAGGAAAATTAACGAAACTTAATTTGGAGTCTCGTAGCTCCAAATATAAATGAATTA
11717647 GTAACTATAACTTGGTAAAATAGCTTAACCTAAACAAGAGTAAATTGTACAATTATGATGTTTTA
131 GTAACTATAACTTGGTAAAATAGCTTAACCTAAACAAGAGTAAATTGTACAATTATGATGTTTTA
11717712 CCTTAAAAAAAATGTAGGTAATTGCTTATTAACTTCATATGGACTTACTAAGCGTAAAGCTTACC
196 CCTTAAAAAAAATGTAGGTAATTGCTTATTAACTTCATATGGACTTACTAAGCGTAAAGCTTACC
11717777 CCTCCTCTCTACTTCTTCAGTTTTGGCAGGTCGGCTTGGGGTTGGAGATCGTCGGAGGCAAAATC
261 CCTCCTCTCTACTTCTTCAGTTTTGGCAGGTCGGCTTGGGGTTGGAGATCGTCGGAGGCAAAATC
11717842 ACACTATCAAGCTCTCATTTTTGGGTGAATTAATTCAAATATTAGAAATATCAAGTGAGTGGCAT
326 ACACTATCAAGCTCTCATTTTTGGGTGAATTAATTCAAATATTAGAAATATCAAGTGAGTGGCAT
11717907 GTATAGGAAGTTGGTTTGTGATATGTATTATTATTATGACTTTGACCATACGTATCGGTCTGTAT
391 GTATAGGAAGTTGGTTTGTGATATGTATTATTATTATGACTTTGACCATACGTATCGGTCTGTAT
11717972 TGAGTTATCGTATATGATCGTGGT
456 TGAGTTATCGTATATGATCGTGGT
11717996 AATAAACTGTACTAATTGGCTAAACCAAAAATTCTATAAATTTTATGGGAGAAAGGTATATGAGT
1 AATAAACTGTACTAATTGGCTAAACCAAAAATTCTATAAATTTTATGGGAGAAAGGTATATGAGT
11718061 TTAGTTTCGAGGAAAATTAACGAAACTTAATTTGGAGTCTCGTAGCTCCAAATATAAATGAATTA
66 TTAGTTTCGAGGAAAATTAACGAAACTTAATTTGGAGTCTCGTAGCTCCAAATATAAATGAATTA
11718126 GTAACTATAACTTGGTAAAATAGCTTAACCTAAACAAGAGTAAATTGTACAATTATGATGTTTTA
131 GTAACTATAACTTGGTAAAATAGCTTAACCTAAACAAGAGTAAATTGTACAATTATGATGTTTTA
11718191 CCTTAAAAAAAATGTAGGTAATTGCTTATTAACTTCATATGGACTTACTAAGCGTAAAGCTTACC
196 CCTTAAAAAAAATGTAGGTAATTGCTTATTAACTTCATATGGACTTACTAAGCGTAAAGCTTACC
11718256 CCTCCTCTCTACTTCTTCAGTTTTGGCAGGTCGGCTTGGGGTTGGAGATCGTCGGAGGCAAAATC
261 CCTCCTCTCTACTTCTTCAGTTTTGGCAGGTCGGCTTGGGGTTGGAGATCGTCGGAGGCAAAATC
11718321 ACACTATCAAGCTCTCATTTTTGGGTGAATTAATTCAAATATTAGAAATATCAAGTGAGTGGCAT
326 ACACTATCAAGCTCTCATTTTTGGGTGAATTAATTCAAATATTAGAAATATCAAGTGAGTGGCAT
11718386 GTATAGGAAGTTGGTTTGTGATATGTATTATTATTATGACTTTGACCATACGTATCGGTCTGTAT
391 GTATAGGAAGTTGGTTTGTGATATGTATTATTATTATGACTTTGACCATACGTATCGGTCTGTAT
11718451 TGAGTTATCGTATATGATCGTGGT
456 TGAGTTATCGTATATGATCGTGGT
11718475 A
1 A
11718476 TGTGGTCCTT
Statistics
Matches: 480, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
479 480 1.00
ACGTcount: A:0.33, C:0.14, G:0.19, T:0.34
Consensus pattern (479 bp):
AATAAACTGTACTAATTGGCTAAACCAAAAATTCTATAAATTTTATGGGAGAAAGGTATATGAGT
TTAGTTTCGAGGAAAATTAACGAAACTTAATTTGGAGTCTCGTAGCTCCAAATATAAATGAATTA
GTAACTATAACTTGGTAAAATAGCTTAACCTAAACAAGAGTAAATTGTACAATTATGATGTTTTA
CCTTAAAAAAAATGTAGGTAATTGCTTATTAACTTCATATGGACTTACTAAGCGTAAAGCTTACC
CCTCCTCTCTACTTCTTCAGTTTTGGCAGGTCGGCTTGGGGTTGGAGATCGTCGGAGGCAAAATC
ACACTATCAAGCTCTCATTTTTGGGTGAATTAATTCAAATATTAGAAATATCAAGTGAGTGGCAT
GTATAGGAAGTTGGTTTGTGATATGTATTATTATTATGACTTTGACCATACGTATCGGTCTGTAT
TGAGTTATCGTATATGATCGTGGT
Found at i:11718854 original size:25 final size:24
Alignment explanation
Indices: 11718804--11718852 Score: 89
Period size: 24 Copynumber: 2.0 Consensus size: 24
11718794 CTAAATTCTC
11718804 TCAAACCCCCTTCAATGGCAAATT
1 TCAAACCCCCTTCAATGGCAAATT
*
11718828 TCAAACCCCCTTCAATGGCAGATT
1 TCAAACCCCCTTCAATGGCAAATT
11718852 T
1 T
11718853 TCGGTAGTGT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 24 1.00
ACGTcount: A:0.31, C:0.33, G:0.10, T:0.27
Consensus pattern (24 bp):
TCAAACCCCCTTCAATGGCAAATT
Found at i:11722183 original size:123 final size:123
Alignment explanation
Indices: 11722020--11722271 Score: 459
Period size: 123 Copynumber: 2.0 Consensus size: 123
11722010 CATATGAATT
*
11722020 TCGTGCCTCATATGAATTTCGTACGTACCTGAGTCATTTAGCTCATTCACATATTCTTTCTCGAC
1 TCGTACCTCATATGAATTTCGTACGTACCTGAGTCATTTAGCTCATTCACATATTCTTTCTCGAC
* *
11722085 TTGAATTTGCCGGTTGAACCATTTGGAATCATTAAGGATACTTAGAAATCACATAAGC
66 TTGAATTTGCCCGTTGAACCATTTGGAATAATTAAGGATACTTAGAAATCACATAAGC
*
11722143 TCGTACCTCGTATGAATTTCGTACGTACCTGAGTCATTTAGCTCATTCACATATTCTTTCTCGAC
1 TCGTACCTCATATGAATTTCGTACGTACCTGAGTCATTTAGCTCATTCACATATTCTTTCTCGAC
*
11722208 TTGAATTTTCCCGTTGAACCATTTGGAATAATTAAGGATACTTAGAAATCACATAAGC
66 TTGAATTTGCCCGTTGAACCATTTGGAATAATTAAGGATACTTAGAAATCACATAAGC
11722266 TCGTAC
1 TCGTAC
11722272 AATGCCATAT
Statistics
Matches: 124, Mismatches: 5, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
123 124 1.00
ACGTcount: A:0.28, C:0.21, G:0.15, T:0.35
Consensus pattern (123 bp):
TCGTACCTCATATGAATTTCGTACGTACCTGAGTCATTTAGCTCATTCACATATTCTTTCTCGAC
TTGAATTTGCCCGTTGAACCATTTGGAATAATTAAGGATACTTAGAAATCACATAAGC
Found at i:11722956 original size:29 final size:27
Alignment explanation
Indices: 11722918--11722976 Score: 73
Period size: 29 Copynumber: 2.1 Consensus size: 27
11722908 TTTTCACTTA
*
11722918 TTTCACAATTTAACCCCTCAATTTACACT
1 TTTCACAATTTAACCCCT-AATTGACA-T
* *
11722947 TTTCTCAATTTAATCCCTAATTGACAT
1 TTTCACAATTTAACCCCTAATTGACAT
11722974 TTT
1 TTT
11722977 GTAAAAAATC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
27 4 0.15
28 7 0.26
29 16 0.59
ACGTcount: A:0.29, C:0.25, G:0.02, T:0.44
Consensus pattern (27 bp):
TTTCACAATTTAACCCCTAATTGACAT
Found at i:11735721 original size:18 final size:18
Alignment explanation
Indices: 11735698--11735738 Score: 57
Period size: 18 Copynumber: 2.3 Consensus size: 18
11735688 TGTTTGTTAA
11735698 TATGATTGAGTTGA-ATTG
1 TATGATTGAGTTGATA-TG
*
11735716 TATGATTGTGTTGATATG
1 TATGATTGAGTTGATATG
11735734 TATGA
1 TATGA
11735739 GATGATAGAC
Statistics
Matches: 21, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
18 20 0.95
19 1 0.05
ACGTcount: A:0.27, C:0.00, G:0.27, T:0.46
Consensus pattern (18 bp):
TATGATTGAGTTGATATG
Found at i:11743141 original size:27 final size:27
Alignment explanation
Indices: 11743103--11743156 Score: 99
Period size: 27 Copynumber: 2.0 Consensus size: 27
11743093 ACTTCCCAAT
*
11743103 TGATAAAATGACTATTATGCCCCTATG
1 TGATAAAATGACTAGTATGCCCCTATG
11743130 TGATAAAATGACTAGTATGCCCCTATG
1 TGATAAAATGACTAGTATGCCCCTATG
11743157 AGATGAATGA
Statistics
Matches: 26, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.33, C:0.19, G:0.17, T:0.31
Consensus pattern (27 bp):
TGATAAAATGACTAGTATGCCCCTATG
Found at i:11744818 original size:13 final size:13
Alignment explanation
Indices: 11744800--11744825 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
11744790 TTGAATCAGT
11744800 ACCAAAACAATCA
1 ACCAAAACAATCA
11744813 ACCAAAACAATCA
1 ACCAAAACAATCA
11744826 TGAAACATAT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.31, G:0.00, T:0.08
Consensus pattern (13 bp):
ACCAAAACAATCA
Found at i:11745741 original size:43 final size:44
Alignment explanation
Indices: 11745673--11745784 Score: 149
Period size: 43 Copynumber: 2.6 Consensus size: 44
11745663 GTTCCAGACG
**
11745673 TGGTCTTACATGT-AATCACATATCGATGCC-ATGTCCCAAACA
1 TGGTCTTACATGTAAATCACATATCGATGCCAACATCCCAAACA
* * * *
11745715 TGGTCTTACACGTAAATCACAAATCGATGCCAACATCCCAGACG
1 TGGTCTTACATGTAAATCACATATCGATGCCAACATCCCAAACA
11745759 TGGTCTTACATG-AAATCACATATCGA
1 TGGTCTTACATGTAAATCACATATCGA
11745785 AATCCTATGT
Statistics
Matches: 60, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
42 12 0.20
43 29 0.48
44 19 0.32
ACGTcount: A:0.33, C:0.26, G:0.15, T:0.26
Consensus pattern (44 bp):
TGGTCTTACATGTAAATCACATATCGATGCCAACATCCCAAACA
Found at i:11753766 original size:31 final size:31
Alignment explanation
Indices: 11753721--11753835 Score: 187
Period size: 31 Copynumber: 3.7 Consensus size: 31
11753711 TTAGTCTTGA
*
11753721 CATAT-ACTGGGCCGAAGCCTTTCCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
11753751 CATATCATTGGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
11753782 CATATCACTAGGCCGAAGCCTTTTCATAAAT
1 CATATCACTGGGCCGAAGCCTTTTCATAAAT
*
11753813 CATTTCACTGGGCCGAAGCCTTT
1 CATATCACTGGGCCGAAGCCTTT
11753836 ACTGTAAACG
Statistics
Matches: 78, Mismatches: 6, Indels: 1
0.92 0.07 0.01
Matches are distributed among these distances:
30 5 0.06
31 73 0.94
ACGTcount: A:0.28, C:0.26, G:0.17, T:0.30
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTTCATAAAT
Found at i:11760383 original size:26 final size:27
Alignment explanation
Indices: 11760294--11760438 Score: 155
Period size: 27 Copynumber: 5.4 Consensus size: 27
11760284 AAACTTACAT
* * ** *
11760294 CACATAAGGGAAAAATAGTCAGCTTAC
1 CACATAAGGGCAAAACAGTCATTTTGC
* * * * * *
11760321 CATATAAGGGAAAAAAAGTTATATTAC
1 CACATAAGGGCAAAACAGTCATTTTGC
* * *
11760348 CACATAAAGGCAAAACAGTTATTTTTC
1 CACATAAGGGCAAAACAGTCATTTTGC
11760375 CACATAAGGGCAAAACAGTCATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTGC
*
11760402 CACATAAGGGCAAAACAATCATTTTGC
1 CACATAAGGGCAAAACAGTCATTTTGC
11760429 CACATAAGGG
1 CACATAAGGG
11760439 TCTAGGTATA
Statistics
Matches: 103, Mismatches: 15, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
27 103 1.00
ACGTcount: A:0.43, C:0.18, G:0.17, T:0.23
Consensus pattern (27 bp):
CACATAAGGGCAAAACAGTCATTTTGC
Found at i:11760518 original size:27 final size:27
Alignment explanation
Indices: 11760488--11760546 Score: 100
Period size: 27 Copynumber: 2.2 Consensus size: 27
11760478 GTCTCGAATG
*
11760488 GTCATTTTGCCACATAAGAGCAAAATA
1 GTCATTTTGCCACATAAGAGCAAAACA
*
11760515 GTCATTTTGCCACATAAGGGCAAAACA
1 GTCATTTTGCCACATAAGAGCAAAACA
11760542 GTCAT
1 GTCAT
11760547 GTCATCAAAT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
27 30 1.00
ACGTcount: A:0.37, C:0.20, G:0.17, T:0.25
Consensus pattern (27 bp):
GTCATTTTGCCACATAAGAGCAAAACA
Found at i:11760587 original size:123 final size:123
Alignment explanation
Indices: 11760368--11760610 Score: 387
Period size: 123 Copynumber: 2.0 Consensus size: 123
11760358 CAAAACAGTT
* * * ** *
11760368 ATTTTTCCACATAAGGGCAAAACAGTCATTTTGCCACATAAGGGCAAAACAATCATTTTGCCACA
1 ATTTTGCCACATAAGAGCAAAACAGTCATTTTGCCACATAAGGGCAAAACAATCATGTCACCAAA
11760433 TAAGGGTCTAGGTATACTTACTGACCCAACAGTAGGTTCACAGTCGTCTCGAATGGTC
66 TAAGGGTCTAGGTATACTTACTGACCCAACAGTAGGTTCACAGTCGTCTCGAATGGTC
* * *
11760491 ATTTTGCCACATAAGAGCAAAATAGTCATTTTGCCACATAAGGGCAAAACAGTCATGTCATCAAA
1 ATTTTGCCACATAAGAGCAAAACAGTCATTTTGCCACATAAGGGCAAAACAATCATGTCACCAAA
**
11760556 TTGGGGTCTAGGTATACTTACTGACCCAACAGTAGGTTCACAGTCGTCTCGAATG
66 TAAGGGTCTAGGTATACTTACTGACCCAACAGTAGGTTCACAGTCGTCTCGAATG
11760611 ACCCGTGCAA
Statistics
Matches: 109, Mismatches: 11, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
123 109 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (123 bp):
ATTTTGCCACATAAGAGCAAAACAGTCATTTTGCCACATAAGGGCAAAACAATCATGTCACCAAA
TAAGGGTCTAGGTATACTTACTGACCCAACAGTAGGTTCACAGTCGTCTCGAATGGTC
Found at i:11762560 original size:28 final size:28
Alignment explanation
Indices: 11762529--11762609 Score: 99
Period size: 28 Copynumber: 2.9 Consensus size: 28
11762519 TGGGAAGTAG
*
11762529 TTGGGCCTAATGGGCCATATGAATGTGA
1 TTGGGCCTAATGGGCCATATGAATGAGA
* * *
11762557 TTGGGCCTGATAGGCCATGTGAATGAGA
1 TTGGGCCTAATGGGCCATATGAATGAGA
* *
11762585 TTGGGCCTAAAAGGGCCAAATGAAT
1 TTGGGCCT-AATGGGCCATATGAAT
11762610 AAGTGTGGAT
Statistics
Matches: 43, Mismatches: 9, Indels: 1
0.81 0.17 0.02
Matches are distributed among these distances:
28 32 0.74
29 11 0.26
ACGTcount: A:0.28, C:0.15, G:0.32, T:0.25
Consensus pattern (28 bp):
TTGGGCCTAATGGGCCATATGAATGAGA
Found at i:11762954 original size:27 final size:26
Alignment explanation
Indices: 11762924--11763033 Score: 148
Period size: 27 Copynumber: 4.1 Consensus size: 26
11762914 GCTGAAATAC
*
11762924 CCCCAATTTGTAAAATTATCGAAGTA
1 CCCCAGTTTGTAAAATTATCGAAGTA
*
11762950 TCCCCCGTTTGTAAAATTATCGAAGTA
1 -CCCCAGTTTGTAAAATTATCGAAGTA
11762977 CCCTCAGTTTGTAAAATTATCGAAGTA
1 CCC-CAGTTTGTAAAATTATCGAAGTA
* * *
11763004 CCCCCGGTTTGTAAAATTATAGAAATA
1 -CCCCAGTTTGTAAAATTATCGAAGTA
11763031 CCC
1 CCC
11763034 TTGTAGTGTA
Statistics
Matches: 75, Mismatches: 6, Indels: 5
0.87 0.07 0.06
Matches are distributed among these distances:
26 6 0.08
27 66 0.88
28 3 0.04
ACGTcount: A:0.34, C:0.22, G:0.14, T:0.31
Consensus pattern (26 bp):
CCCCAGTTTGTAAAATTATCGAAGTA
Found at i:11762991 original size:54 final size:54
Alignment explanation
Indices: 11762917--11763034 Score: 184
Period size: 54 Copynumber: 2.2 Consensus size: 54
11762907 ATAAATTGCT
* *
11762917 GAAATACCCCCAATTTGTAAAATTATCGAAGTATCCCCC-GTTTGTAAAATTATC
1 GAAATACCCTCAATTTGTAAAATTATCGAAGTA-CCCCCGGTTTGTAAAATTATA
* *
11762971 GAAGTACCCTCAGTTTGTAAAATTATCGAAGTACCCCCGGTTTGTAAAATTATA
1 GAAATACCCTCAATTTGTAAAATTATCGAAGTACCCCCGGTTTGTAAAATTATA
11763025 GAAATACCCT
1 GAAATACCCT
11763035 TGTAGTGTAT
Statistics
Matches: 58, Mismatches: 5, Indels: 2
0.89 0.08 0.03
Matches are distributed among these distances:
53 5 0.09
54 53 0.91
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (54 bp):
GAAATACCCTCAATTTGTAAAATTATCGAAGTACCCCCGGTTTGTAAAATTATA
Found at i:11763043 original size:27 final size:27
Alignment explanation
Indices: 11763013--11763101 Score: 124
Period size: 27 Copynumber: 3.3 Consensus size: 27
11763003 ACCCCCGGTT
**
11763013 TGTAAAATTATAGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
11763040 TGTATAATTACCGAAATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
* *
11763067 TGTAAAATGACCGACATACCCTTGTAG
1 TGTAAAATTACCGAAATACCCTTGTAG
*
11763094 GGTAAAAT
1 TGTAAAAT
11763102 GACTATTTTG
Statistics
Matches: 55, Mismatches: 7, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 55 1.00
ACGTcount: A:0.37, C:0.16, G:0.17, T:0.30
Consensus pattern (27 bp):
TGTAAAATTACCGAAATACCCTTGTAG
Found at i:11763049 original size:54 final size:53
Alignment explanation
Indices: 11762917--11763060 Score: 164
Period size: 54 Copynumber: 2.7 Consensus size: 53
11762907 ATAAATTGCT
* * * *
11762917 GAAATACCCCCAATTTGTAAAATTATCGAAGTATCCCCCGTTTGTAAAATTATC
1 GAAATACCCTCAGTGTGTAAAATTATCGAAGTA-CCCCCGTTTGTAAAATTATA
* *
11762971 GAAGTACCCTCAGTTTGTAAAATTATCGAAGTACCCCCGGTTTGTAAAATTATA
1 GAAATACCCTCAGTGTGTAAAATTATCGAAGTACCCCC-GTTTGTAAAATTATA
* * * *
11763025 GAAATACCCT-TGTAGTGTATAATTACCGAAATACCC
1 GAAATACCCTCAGT-GTGTAAAATTATCGAAGTACCC
11763061 TTGTAGTGTA
Statistics
Matches: 78, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
53 7 0.09
54 71 0.91
ACGTcount: A:0.35, C:0.21, G:0.14, T:0.31
Consensus pattern (53 bp):
GAAATACCCTCAGTGTGTAAAATTATCGAAGTACCCCCGTTTGTAAAATTATA
Found at i:11763666 original size:18 final size:18
Alignment explanation
Indices: 11763643--11763679 Score: 65
Period size: 18 Copynumber: 2.1 Consensus size: 18
11763633 ACACGTCTAT
*
11763643 GTGATTTACTCGTGTAGG
1 GTGATTTACACGTGTAGG
11763661 GTGATTTACACGTGTAGG
1 GTGATTTACACGTGTAGG
11763679 G
1 G
11763680 CACACAAGCT
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.19, C:0.11, G:0.35, T:0.35
Consensus pattern (18 bp):
GTGATTTACACGTGTAGG
Found at i:11768174 original size:14 final size:14
Alignment explanation
Indices: 11768155--11768181 Score: 54
Period size: 14 Copynumber: 1.9 Consensus size: 14
11768145 ACAGCGGTCA
11768155 CACGCCCATGTGGT
1 CACGCCCATGTGGT
11768169 CACGCCCATGTGG
1 CACGCCCATGTGG
11768182 GTAGACCGTG
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 13 1.00
ACGTcount: A:0.15, C:0.37, G:0.30, T:0.19
Consensus pattern (14 bp):
CACGCCCATGTGGT
Found at i:11770484 original size:44 final size:41
Alignment explanation
Indices: 11770387--11770486 Score: 112
Period size: 40 Copynumber: 2.4 Consensus size: 41
11770377 CAATGGTATT
* *
11770387 TGGCACTAAGTGTGCGATTCAAAATAGCTTCAACTATTTGA
1 TGGCACTAAGTGTGCGATCCAAAATAGCTTCAACTAATTGA
* * **
11770428 -GGCACTAAGTGTGCGATACCGAGATAGCTTCAGTTAATTGAAA
1 TGGCACTAAGTGTGCGAT-CCAAAATAGCTTCAACTAATTG--A
11770471 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
11770487 GATGTTAAAG
Statistics
Matches: 49, Mismatches: 6, Indels: 5
0.82 0.10 0.08
Matches are distributed among these distances:
40 17 0.35
41 16 0.33
43 1 0.02
44 15 0.31
ACGTcount: A:0.30, C:0.17, G:0.25, T:0.28
Consensus pattern (41 bp):
TGGCACTAAGTGTGCGATCCAAAATAGCTTCAACTAATTGA
Found at i:11772974 original size:33 final size:32
Alignment explanation
Indices: 11772937--11773003 Score: 116
Period size: 33 Copynumber: 2.1 Consensus size: 32
11772927 GTGAAAGACG
*
11772937 ACATTTTGGAGAGTGCTGGGGAAAGAGTAATA
1 ACATTTTAGAGAGTGCTGGGGAAAGAGTAATA
11772969 NACATTTTAGAGAGTGCTGGGGAAAGAGTAATA
1 -ACATTTTAGAGAGTGCTGGGGAAAGAGTAATA
11773002 AC
1 AC
11773004 TAAGCTTGTT
Statistics
Matches: 33, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
32 2 0.06
33 31 0.94
ACGTcount: A:0.36, C:0.07, G:0.31, T:0.24
Consensus pattern (32 bp):
ACATTTTAGAGAGTGCTGGGGAAAGAGTAATA
Found at i:11777002 original size:11 final size:11
Alignment explanation
Indices: 11776986--11777012 Score: 54
Period size: 11 Copynumber: 2.5 Consensus size: 11
11776976 AATAAAACAA
11776986 AAGCTTCAAAT
1 AAGCTTCAAAT
11776997 AAGCTTCAAAT
1 AAGCTTCAAAT
11777008 AAGCT
1 AAGCT
11777013 CATTTCATGC
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 16 1.00
ACGTcount: A:0.44, C:0.19, G:0.11, T:0.26
Consensus pattern (11 bp):
AAGCTTCAAAT
Found at i:11783789 original size:105 final size:102
Alignment explanation
Indices: 11783610--11783837 Score: 280
Period size: 105 Copynumber: 2.2 Consensus size: 102
11783600 ACCTGACGGA
* * * *
11783610 TAAGACCATGGTTAGACCATGGCAAAGTGTTAAATGTAAGACCATAGCTGGGCTATGGCATTTTA
1 TAAGACCATGGTTGGACCATGACAAAGTGTTAAATGTAAGACCATAGCTGGGCTATGGCATCTGA
* *
11783675 GTGAAAAGACCATAATTAGGTTATGGCACTGTGAACG
66 GTGAAAAGACCATAACTAGGTTATGGCACTATGAACG
* *
11783712 TAAGACCATGGTTGGACCATGACAGTATA-TGTATAAGTGTAAGACCATAGTTGGGCTATGGCAT
1 TAAGACCATGGTTGGACCATGACA--A-AGTGT-TAAATGTAAGACCATAGCTGGGCTATGGCAT
* **
11783776 CCTGA-TGATAAGACCATAACTAGGTTATGGCACTATGAGTG
62 -CTGAGTGAAAAGACCATAACTAGGTTATGGCACTATGAACG
* *
11783817 TAAGACCATGGTAGGGCCATG
1 TAAGACCATGGTTGGACCATG
11783838 GCAATATACG
Statistics
Matches: 108, Mismatches: 13, Indels: 7
0.84 0.10 0.05
Matches are distributed among these distances:
102 22 0.20
104 4 0.04
105 80 0.74
106 2 0.02
ACGTcount: A:0.32, C:0.15, G:0.26, T:0.26
Consensus pattern (102 bp):
TAAGACCATGGTTGGACCATGACAAAGTGTTAAATGTAAGACCATAGCTGGGCTATGGCATCTGA
GTGAAAAGACCATAACTAGGTTATGGCACTATGAACG
Found at i:11786703 original size:40 final size:39
Alignment explanation
Indices: 11786513--11786696 Score: 194
Period size: 40 Copynumber: 4.6 Consensus size: 39
11786503 TGAATGATGT
* * * *
11786513 CCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATAT
1 CCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTA-AA
* * *
11786553 CCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAATT
1 CCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAA-A
*
11786593 CCGGGCTAAG-CCCGAAGGCATTTGTTCGAGTTACTAAA
1 CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
* *
11786631 TTCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 -CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
11786672 CCGGGCTATGTCCCGAAGGCATTTG
1 CCGGGCTAAGTCCCGAAGGCATTTG
11786697 AACGAGTAGC
Statistics
Matches: 122, Mismatches: 15, Indels: 14
0.81 0.10 0.09
Matches are distributed among these distances:
39 33 0.27
40 79 0.65
41 10 0.08
ACGTcount: A:0.24, C:0.22, G:0.27, T:0.26
Consensus pattern (39 bp):
CCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:11786718 original size:79 final size:79
Alignment explanation
Indices: 11786565--11786729 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
11786555 GGACTAAGAT
* **
11786565 CCGAAGGCATTTGTGCGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTTCGAGTTACTAA
1 CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
* *
11786630 ATTCGGGTTAAGTC
66 ATTCCGGTTAAATC
* *
11786644 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTGCGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
11786707 TATA-TCCGGTTAAATT
63 TAAATTCCGGTTAAATC
11786723 CCGAAGG
1 CCGAAGG
11786730 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 50 0.68
80 22 0.30
ACGTcount: A:0.26, C:0.21, G:0.27, T:0.27
Consensus pattern (79 bp):
CCGAAGGCATTTGTGCGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATTCCGGTTAAATC
Found at i:11793263 original size:27 final size:26
Alignment explanation
Indices: 11793215--11793266 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
11793205 GCGAGGCTGC
*
11793215 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
11793241 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
11793267 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Found at i:11800691 original size:27 final size:26
Alignment explanation
Indices: 11800643--11800694 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
11800633 GTAAGGCTGC
*
11800643 CAGATATTGTGACGAAGTCACCAGAA
1 CAGATATTGTGACGAAGCCACCAGAA
* *
11800669 CAGATATATGTGGCGAGGCCACCAGA
1 CAGATAT-TGTGACGAAGCCACCAGA
11800695 TTGCAGCGAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.35, C:0.21, G:0.27, T:0.17
Consensus pattern (26 bp):
CAGATATTGTGACGAAGCCACCAGAA
Done.