Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr8
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: 56894857
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.32
Warning! 1173888 characters in sequence are not A, C, G, or T
File 137 of 185
Found at i:41991744 original size:50 final size:50
Alignment explanation
Indices: 41991598--41991839 Score: 378
Period size: 50 Copynumber: 4.8 Consensus size: 50
41991588 ATTTGGGTAA
* *
41991598 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCATCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
41991648 AGAGGTCCCATGTAAGACCAT-TCTGGGACATGGCATTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
*
41991697 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** * *
41991747 AGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
** *
41991797 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
41991840 TGTTATGATC
Statistics
Matches: 176, Mismatches: 14, Indels: 3
0.91 0.07 0.02
Matches are distributed among these distances:
49 47 0.27
50 95 0.54
51 34 0.19
ACGTcount: A:0.25, C:0.23, G:0.31, T:0.21
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGATG
Found at i:41996637 original size:15 final size:15
Alignment explanation
Indices: 41996600--41996648 Score: 66
Period size: 15 Copynumber: 3.3 Consensus size: 15
41996590 TTTATACAAT
41996600 TTATAGA-AATTATA-
1 TTATAGATAA-TATAC
41996614 TTATAAGATAATATAC
1 TTAT-AGATAATATAC
41996630 TTATAGATAATATAC
1 TTATAGATAATATAC
41996645 TTAT
1 TTAT
41996649 TCATAAAGAT
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
14 4 0.12
15 22 0.69
16 6 0.19
ACGTcount: A:0.47, C:0.04, G:0.06, T:0.43
Consensus pattern (15 bp):
TTATAGATAATATAC
Found at i:41996654 original size:15 final size:15
Alignment explanation
Indices: 41996621--41996654 Score: 50
Period size: 15 Copynumber: 2.3 Consensus size: 15
41996611 ATATTATAAG
*
41996621 ATAATATACTTATAG
1 ATAATATACTTATAC
*
41996636 ATAATATACTTATTC
1 ATAATATACTTATAC
41996651 ATAA
1 ATAA
41996655 AGATAATATA
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 17 1.00
ACGTcount: A:0.47, C:0.09, G:0.03, T:0.41
Consensus pattern (15 bp):
ATAATATACTTATAC
Found at i:41996658 original size:36 final size:36
Alignment explanation
Indices: 41996618--41996726 Score: 111
Period size: 36 Copynumber: 3.1 Consensus size: 36
41996608 ATTATATTAT
41996618 AAGATAATATACTTATAGATAATATACTTATTCATA
1 AAGATAATATACTTATAGATAATATACTTATTCATA
*
41996654 AAGATAATATACTTATAGA-AAT-TA-TT-TTTATA
1 AAGATAATATACTTATAGATAATATACTTATTCATA
* * *
41996686 CAATTTATACA-ATTCTTAAAGATAATATACTTATTCATA
1 -AA--GATA-ATATACTTATAGATAATATACTTATTCATA
41996725 AA
1 AA
41996727 AAAATATTAT
Statistics
Matches: 60, Mismatches: 5, Indels: 14
0.76 0.06 0.18
Matches are distributed among these distances:
32 5 0.08
33 4 0.07
34 2 0.03
35 15 0.25
36 23 0.38
37 2 0.03
38 4 0.07
39 5 0.08
ACGTcount: A:0.47, C:0.08, G:0.05, T:0.40
Consensus pattern (36 bp):
AAGATAATATACTTATAGATAATATACTTATTCATA
Found at i:41997935 original size:4 final size:5
Alignment explanation
Indices: 41997910--41997942 Score: 50
Period size: 5 Copynumber: 6.6 Consensus size: 5
41997900 GCTGTCGTCT
41997910 TTTTA TTTTA TTTTA TTTTA -TTTA TTTATA TTT
1 TTTTA TTTTA TTTTA TTTTA TTTTA TTT-TA TTT
41997943 CCTGGATTCA
Statistics
Matches: 26, Mismatches: 0, Indels: 3
0.90 0.00 0.10
Matches are distributed among these distances:
4 4 0.15
5 17 0.65
6 5 0.19
ACGTcount: A:0.21, C:0.00, G:0.00, T:0.79
Consensus pattern (5 bp):
TTTTA
Found at i:42002281 original size:44 final size:44
Alignment explanation
Indices: 42002233--42002322 Score: 135
Period size: 44 Copynumber: 2.0 Consensus size: 44
42002223 TAATTGTAAT
* * *
42002233 TTAAATTCTAATTATTTTTAAATGTGCAATTATCATAACTTCTA
1 TTAAATTATAATTATTTTTAAATGTACAATTATCACAACTTCTA
* *
42002277 TTAAATTATAATTATTTTTAAATGTATAATTATCACAACTTTTA
1 TTAAATTATAATTATTTTTAAATGTACAATTATCACAACTTCTA
42002321 TT
1 TT
42002323 TTAATTCAAG
Statistics
Matches: 41, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
44 41 1.00
ACGTcount: A:0.38, C:0.09, G:0.03, T:0.50
Consensus pattern (44 bp):
TTAAATTATAATTATTTTTAAATGTACAATTATCACAACTTCTA
Found at i:42009408 original size:13 final size:13
Alignment explanation
Indices: 42009390--42009414 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42009380 TTACGTTTTA
42009390 ACTCCTCCTTAAC
1 ACTCCTCCTTAAC
42009403 ACTCCTCCTTAA
1 ACTCCTCCTTAA
42009415 TCAAATCCAA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.24, C:0.44, G:0.00, T:0.32
Consensus pattern (13 bp):
ACTCCTCCTTAAC
Found at i:42010427 original size:28 final size:28
Alignment explanation
Indices: 42010395--42010449 Score: 110
Period size: 28 Copynumber: 2.0 Consensus size: 28
42010385 ATTGAAAGAA
42010395 TGATACATTGGACTCGACCCAAATTGAG
1 TGATACATTGGACTCGACCCAAATTGAG
42010423 TGATACATTGGACTCGACCCAAATTGA
1 TGATACATTGGACTCGACCCAAATTGA
42010450 ATTAATTCTG
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
28 27 1.00
ACGTcount: A:0.33, C:0.22, G:0.20, T:0.25
Consensus pattern (28 bp):
TGATACATTGGACTCGACCCAAATTGAG
Found at i:42011625 original size:14 final size:13
Alignment explanation
Indices: 42011606--42011638 Score: 50
Period size: 14 Copynumber: 2.5 Consensus size: 13
42011596 CGAAACAAAG
42011606 AAGAAAAAGAGAGA
1 AAGAAAAAG-GAGA
42011620 AAGAAAAAGGAGA
1 AAGAAAAAGGAGA
42011633 AA-AAAA
1 AAGAAAA
42011639 TTAGGGTTTT
Statistics
Matches: 19, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
12 4 0.21
13 6 0.32
14 9 0.47
ACGTcount: A:0.76, C:0.00, G:0.24, T:0.00
Consensus pattern (13 bp):
AAGAAAAAGGAGA
Found at i:42013486 original size:30 final size:30
Alignment explanation
Indices: 42013450--42013517 Score: 127
Period size: 30 Copynumber: 2.3 Consensus size: 30
42013440 CCACACGGTC
*
42013450 AGACACACGGGCGTGTGACTGGACCGTGTG
1 AGACACACGGGCGTGTGACTGGACCGCGTG
42013480 AGACACACGGGCGTGTGACTGGACCGCGTG
1 AGACACACGGGCGTGTGACTGGACCGCGTG
42013510 AGACACAC
1 AGACACAC
42013518 AGCTAACACA
Statistics
Matches: 37, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
30 37 1.00
ACGTcount: A:0.24, C:0.26, G:0.37, T:0.13
Consensus pattern (30 bp):
AGACACACGGGCGTGTGACTGGACCGCGTG
Found at i:42015916 original size:18 final size:18
Alignment explanation
Indices: 42015851--42015916 Score: 69
Period size: 18 Copynumber: 3.7 Consensus size: 18
42015841 ATGTAAATGA
** *
42015851 ATAGGCTCATATAAGTGC
1 ATAGGCTCGCATAAGTGT
*
42015869 ATAGGCTCGCACAAGTGT
1 ATAGGCTCGCATAAGTGT
* *
42015887 TTAAGCTCGCATAAGTGT
1 ATAGGCTCGCATAAGTGT
*
42015905 ATAGGCACGCAT
1 ATAGGCTCGCAT
42015917 GATACTAGGT
Statistics
Matches: 38, Mismatches: 10, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
18 38 1.00
ACGTcount: A:0.30, C:0.20, G:0.24, T:0.26
Consensus pattern (18 bp):
ATAGGCTCGCATAAGTGT
Found at i:42016843 original size:13 final size:13
Alignment explanation
Indices: 42016827--42016861 Score: 61
Period size: 13 Copynumber: 2.7 Consensus size: 13
42016817 TCAAACTCGT
*
42016827 AAATATTTATTAG
1 AAATATTTATTAA
42016840 AAATATTTATTAA
1 AAATATTTATTAA
42016853 AAATATTTA
1 AAATATTTA
42016862 CGAGGCTAGT
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 21 1.00
ACGTcount: A:0.51, C:0.00, G:0.03, T:0.46
Consensus pattern (13 bp):
AAATATTTATTAA
Found at i:42017999 original size:16 final size:16
Alignment explanation
Indices: 42017974--42018007 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
42017964 ATGAATATAT
* *
42017974 ATGTGTAAATGTGATA
1 ATGTGCAAATATGATA
42017990 ATGTGCAAATATGATA
1 ATGTGCAAATATGATA
42018006 AT
1 AT
42018008 TGGATATTGG
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 16 1.00
ACGTcount: A:0.41, C:0.03, G:0.21, T:0.35
Consensus pattern (16 bp):
ATGTGCAAATATGATA
Found at i:42029102 original size:94 final size:93
Alignment explanation
Indices: 42028939--42029551 Score: 578
Period size: 94 Copynumber: 6.6 Consensus size: 93
42028929 AACAGATCAG
* * * *
42028939 TGAAGCTACAATTCCTATACCCTTAAAGTTGAAGTGGGTCGAAATGAAACTACAATGGTGAATTT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCG-AATGAAACTACAATGGTGAATCT
* *
42029004 TATATCCCTGAAGTTGCAGTAGATTGGAT
65 TATATCCCTGAAGTTGCAGTGGATCGGAT
* * * * * *
42029033 TGAAGCTACAATTCTTATATCCCTAAAATTGCAGTGGGTCAGAATGAAACTACAACGGTGAATCC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTC-GAATGAAACTACAATGGTGAATCT
** *
42029098 TATATCCCTGAAGTTATAGTGGATCAGAT
65 TATATCCCTGAAGTTGCAGTGGATCGGAT
* * * *
42029127 TAAAGCTACAATTCCTATACCCCTGAAGTT-CTAATGGGTCGAAATGAAACTACAATAGTGAATA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGC-AGTGGGTCG-AATGAAACTACAATGGTGAATC
* *
42029191 TTATATTCCTAAAGTTGCAGTGGATCGGAT
64 TTATATCCCTGAAGTTGCAGTGGATCGGAT
* ** * * *
42029221 TGAAGCTACAATTCCTATACCCCTAAAGTTGTGGTGGGTCGGATTGAAATTACAATGGCGAATCT
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTC-GAATGAAACTACAATGGTGAATCT
** * * * * *
42029286 TACCTCTCTGAAGTTGCAATAGAGCAAGA-
65 TATATCCCTGAAGTTGCAGTGGATC-GGAT
* * * * * *
42029315 TGAAGTTACGATTCTTATACCCCTGAAGTTGCAGTGGGTCGAAATGAAACTACAAAGGCGAATCC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCG-AATGAAACTACAATGGTGAATCT
* * * *
42029380 TATATCCCTAAAGTTACAGCGAATCGGAT
65 TATATCCCTGAAGTTGCAGTGGATCGGAT
* * * *
42029409 TGAAGCTACAATTCCTACACCCCTGAAGTTGCAGTGGGTCAGATTGAAGCTACAA---T---TCA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTC-GAATGAAACTACAATGGTGAATCT
* *
42029468 TATA-CCTCTGAAGTTGTAGTGGGTCGGAT
65 TATATCC-CTGAAGTTGCAGTGGATCGGAT
* * * * *
42029497 TGAAGCTACAATTCATATACCCCTGAAGTTACAATGGGTCAGATTGAAGCTACAA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTC-GAATGAAACTACAA
42029552 CTTCTATACC
Statistics
Matches: 423, Mismatches: 86, Indels: 26
0.79 0.16 0.05
Matches are distributed among these distances:
87 2 0.00
88 73 0.17
93 5 0.01
94 338 0.80
95 5 0.01
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (93 bp):
TGAAGCTACAATTCCTATACCCCTGAAGTTGCAGTGGGTCGAATGAAACTACAATGGTGAATCTT
ATATCCCTGAAGTTGCAGTGGATCGGAT
Found at i:42029260 original size:188 final size:187
Alignment explanation
Indices: 42028939--42029536 Score: 649
Period size: 188 Copynumber: 3.2 Consensus size: 187
42028929 AACAGATCAG
* * * * *
42028939 TGAAGCTACAATTCCTATACCCTTAAAGTTGA-AGTGGGTCGAAATGAAACTACAATGGTGAATT
1 TGAAGCTACAATTCCTATACCCCTGAAGTT-ACAATGGGTCGAAATGAAACTACAATAGTGAATA
* * * * * *
42029003 TTATATCCCTGAAGTTGCAGTAGATTGGATTGAAGCTACAATTCTTATATCCCTAAAATTGCAGT
65 TTATATCCCTAAAGTTGCAGTGGATCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTGCAGT
* * *
42029068 GGGTCAGAATGAAACTACAACGGTGAATCCTATATCCCTGAAGTTATAGTGGATCAGAT
130 GGGTCAGATTGAAACTACAA-GGTGAATCATATATCCCTGAAGTTGTAGTGGATCAGAT
*
42029127 TAAAGCTACAATTCCTATACCCCTGAAGTT-CTAATGGGTCGAAATGAAACTACAATAGTGAATA
1 TGAAGCTACAATTCCTATACCCCTGAAGTTAC-AATGGGTCGAAATGAAACTACAATAGTGAATA
* **
42029191 TTATATTCCTAAAGTTGCAGTGGATCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTGTGGT
65 TTATATCCCTAAAGTTGCAGTGGATCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTGCAGT
* * * * ** * * * * *
42029256 GGGTCGGATTGAAATTACAATGGCGAATCTTACCTCTCTGAAGTTGCAATAGAGCAAGA-
130 GGGTCAGATTGAAACTACAA-GGTGAATCATATATCCCTGAAGTTGTAGTGGATC-AGAT
* * * * * * *
42029315 TGAAGTTACGATTCTTATACCCCTGAAGTTGCAGTGGGTCGAAATGAAACTACAA-AGGCGAATC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTACAATGGGTCGAAATGAAACTACAATA-GTGAATA
* * * * * *
42029379 CTATATCCCTAAAGTTACAGCGAATCGGATTGAAGCTACAATTCCTACACCCCTGAAGTTGCAGT
65 TTATATCCCTAAAGTTGCAGTGGATCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTGCAGT
* * *
42029444 GGGTCAGATTGAAGCTACAA--T---TCATATA-CCTCTGAAGTTGTAGTGGGTCGGAT
130 GGGTCAGATTGAAACTACAAGGTGAATCATATATCC-CTGAAGTTGTAGTGGATCAGAT
*
42029497 TGAAGCTACAATTCATATACCCCTGAAGTTACAATGGGTC
1 TGAAGCTACAATTCCTATACCCCTGAAGTTACAATGGGTC
42029537 AGATTGAAGC
Statistics
Matches: 339, Mismatches: 64, Indels: 20
0.80 0.15 0.05
Matches are distributed among these distances:
181 3 0.01
182 52 0.15
187 1 0.00
188 279 0.82
189 4 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (187 bp):
TGAAGCTACAATTCCTATACCCCTGAAGTTACAATGGGTCGAAATGAAACTACAATAGTGAATAT
TATATCCCTAAAGTTGCAGTGGATCGGATTGAAGCTACAATTCCTATACCCCTAAAGTTGCAGTG
GGTCAGATTGAAACTACAAGGTGAATCATATATCCCTGAAGTTGTAGTGGATCAGAT
Found at i:42029362 original size:44 final size:44
Alignment explanation
Indices: 42028999--42029672 Score: 321
Period size: 44 Copynumber: 14.7 Consensus size: 44
42028989 TACAATGGTG
* * * * *
42028999 AATT-TTATATCCCTGAAGTTGCAGTAGATTGGATTGAAGCTAC
1 AATTCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAGCTAC
* * * *
42029042 AATTCTTATATCCCTAAAATTGCAGTGGGTCAGAA-TGAAACTAC
1 AATTCTTATACCCCTGAAGTTGCAGTGGGTC-GAATTGAAGCTAC
* * ** * *
42029086 AACGGTGAATCCTATATCCCTGAAGTTATAGTGGATC-AGATTAAAGCTAC
1 AA---T---TCTTATACCCCTGAAGTTGCAGTGGGTCGA-ATTGAAGCTAC
* * * *
42029136 AATTCCTATACCCCTGAAGTT-CTAATGGGTCGAAATGAAACTAC
1 AATTCTTATACCCCTGAAGTTGC-AGTGGGTCGAATTGAAGCTAC
* ** * * *
42029180 AATAGTGAATATTATATTCCTAAAGTTGCAGTGGATCGGATTGAAGCTAC
1 -A-A-T---TCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAGCTAC
* * ** * **
42029230 AATTCCTATACCCCTAAAGTTGTGGTGGGTCGGATTGAAATTAC
1 AATTCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAGCTAC
* * * * *
42029274 AATGGCGAATCT-TACCTCTCTGAAGTTGCAATAGAG-C-AAGATGAAGTTAC
1 AAT-TC---T-TATACC-C-CTGAAGTTGCAGT-GGGTCGAA-TTGAAGCTAC
* * *
42029324 GATTCTTATACCCCTGAAGTTGCAGTGGGTCGAAATGAAACTAC
1 AATTCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAGCTAC
* * * * * * ** *
42029368 AAAGGCGAATCCTATATCCCTAAAGTTACAGCGAATCGGATTGAAGCTAC
1 --A----ATTCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAGCTAC
* *
42029418 AATTCCTACACCCCTGAAGTTGCAGTGGGTC-AGATTGAAGCTAC
1 AATTCTTATACCCCTGAAGTTGCAGTGGGTCGA-ATTGAAGCTAC
* * * *
42029462 AATTCATATACCTCTGAAGTTGTAGTGGGTCGGATTGAAGCTAC
1 AATTCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAGCTAC
* * *
42029506 AATTCATATACCCCTGAAGTTACAATGGGTC-AGATTGAAGCTAC
1 AATTCTTATACCCCTGAAGTTGCAGTGGGTCGA-ATTGAAGCTAC
*
42029550 AACTTC-TATACCCCTGAAGTTGTAGTGGGTCGAATTGAAGTTACCATAGC
1 AA-TTCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAG----C-TA-C
* * *
42029600 AAATCTTAT-CTCCCAGAAGTTGCAGTGGAGTAG-A-TGAAGCTAC
1 AATTCTTATAC-CCCTGAAGTTGCAGTGG-GTCGAATTGAAGCTAC
*
42029643 AAATCTTATACCCCTGAAGTTGCAGTGGGT
1 AATTCTTATACCCCTGAAGTTGCAGTGGGT
42029673 ACATTAGCGA
Statistics
Matches: 483, Mismatches: 96, Indels: 105
0.71 0.14 0.15
Matches are distributed among these distances:
42 2 0.00
43 32 0.07
44 261 0.54
45 14 0.03
46 6 0.01
47 4 0.01
48 8 0.02
49 16 0.03
50 134 0.28
51 6 0.01
ACGTcount: A:0.32, C:0.19, G:0.21, T:0.28
Consensus pattern (44 bp):
AATTCTTATACCCCTGAAGTTGCAGTGGGTCGAATTGAAGCTAC
Found at i:42029744 original size:82 final size:81
Alignment explanation
Indices: 42029596--42029754 Score: 246
Period size: 82 Copynumber: 2.0 Consensus size: 81
42029586 GAAGTTACCA
* * *
42029596 TAGCAAATCTTATCTCCCAGAAGTTGCAGTGGAGTAGATGAAGCTACAAATCTTATACCCCTGAA
1 TAGCAAATCTTATCTCCCAGAAGTTGCAGTGGAGAAGAAGAAGCTACAAATCCTATACCCCTGAA
42029661 GTTGCAGTGGGTACAT
66 GTTGCAGTGGGTACAT
* **
42029677 TAGCGAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTGA
1 TAGCAAATCTTATCTCCCAGAAGTTGCAGTGGAG-AAGAAGAAGCTACAAATCCTATACCCCTGA
*
42029742 AGTTGGAGTGGGT
65 AGTTGCAGTGGGT
42029755 CAAATTAAAT
Statistics
Matches: 70, Mismatches: 7, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
81 31 0.44
82 39 0.56
ACGTcount: A:0.31, C:0.19, G:0.24, T:0.26
Consensus pattern (81 bp):
TAGCAAATCTTATCTCCCAGAAGTTGCAGTGGAGAAGAAGAAGCTACAAATCCTATACCCCTGAA
GTTGCAGTGGGTACAT
Found at i:42030000 original size:188 final size:188
Alignment explanation
Indices: 42029681--42030080 Score: 518
Period size: 188 Copynumber: 2.1 Consensus size: 188
42029671 GTACATTAGC
*
42029681 GAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTGAAGTT
1 GAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTAAAGTT
** * * *
42029746 GGAGTGGGTCAAATTAAATCTACCATAATAAATCTTATCTCCCTGAATATGCAGTGAAGCAAGAT
66 ACAGTGGGTCAAATTAAATATACCATAACAAATCTTATCTCCCTGAAGATGCAGTGAAGCAAGAT
* ** ** *
42029811 GAAGCTACAAATTTTATACCCCT-AAAGTTACAGTGGGTTGGATTGAATCTAC-CATAA
131 GAACCTACAAATCCTATACCCCTGAAA-TTACAGTGGAATGGATTGAAACTACACATAA
* * * *
42029868 GGAATCTTATCTCCTTGACGTTGCAGTGGAGTAAGATGAAGCTACAAATCCTATATCCCTAAAGT
1 -GAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTAAAGT
* * * * * *
42029933 TACAGTGGGTTAGATTGAATATACCATAACGAATCTTATCTCCCTGAAGATGTAGTGAAGTAAGA
65 TACAGTGGGTCAAATTAAATATACCATAACAAATCTTATCTCCCTGAAGATGCAGTGAAGCAAGA
* ** *
42029998 TGAACCTACAAATCCTATATCCCTGAAATTGTAGTGGAATGGATTGAAACTACAACATCA
130 TGAACCTACAAATCCTATACCCCTGAAATTACAGTGGAATGGATTGAAACTAC-ACATAA
42030058 -AATCTTATCTCCTTGAAGTTGCA
1 GAATCTTATCTCCTTGAAGTTGCA
42030081 ATTGAACAAG
Statistics
Matches: 182, Mismatches: 27, Indels: 6
0.85 0.13 0.03
Matches are distributed among these distances:
188 175 0.96
189 3 0.02
190 4 0.02
ACGTcount: A:0.34, C:0.18, G:0.18, T:0.29
Consensus pattern (188 bp):
GAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTAAAGTT
ACAGTGGGTCAAATTAAATATACCATAACAAATCTTATCTCCCTGAAGATGCAGTGAAGCAAGAT
GAACCTACAAATCCTATACCCCTGAAATTACAGTGGAATGGATTGAAACTACACATAA
Found at i:42030045 original size:94 final size:94
Alignment explanation
Indices: 42029680--42030021 Score: 432
Period size: 94 Copynumber: 3.6 Consensus size: 94
42029670 GGTACATTAG
* * * * * *
42029680 CGAATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTGAAGT
1 CGAATCTTATCTCCCTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGT
** * * *
42029745 TGGAGTGGGTCAAATTAAATCTACCATAA
66 TACAGTGGGTTAGATTGAATCTACCATAA
** * * **
42029774 TAAATCTTATCTCCCTGAATATGCAGTGAAGCAAGATGAAGCTACAAATTTTATACCCCTAAAGT
1 CGAATCTTATCTCCCTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGT
*
42029839 TACAGTGGGTTGGATTGAATCTACCATAA
66 TACAGTGGGTTAGATTGAATCTACCATAA
* * * * * *
42029868 GGAATCTTATCTCCTTGACGTTGCAGTGGAGTAAGATGAAGCTACAAATCCTATATCCCTAAAGT
1 CGAATCTTATCTCCCTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGT
*
42029933 TACAGTGGGTTAGATTGAATATACCATAA
66 TACAGTGGGTTAGATTGAATCTACCATAA
* * *
42029962 CGAATCTTATCTCCCTGAAGATGTAGTGAAGTAAGATGAACCTACAAATCCTATATCCCT
1 CGAATCTTATCTCCCTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCT
42030022 GAAATTGTAG
Statistics
Matches: 211, Mismatches: 37, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
94 211 1.00
ACGTcount: A:0.34, C:0.19, G:0.18, T:0.28
Consensus pattern (94 bp):
CGAATCTTATCTCCCTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGT
TACAGTGGGTTAGATTGAATCTACCATAA
Found at i:42030062 original size:94 final size:94
Alignment explanation
Indices: 42029682--42030080 Score: 371
Period size: 94 Copynumber: 4.2 Consensus size: 94
42029672 TACATTAGCG
* * * * * *
42029682 AATCTTATCTCCTTGAAGTTGCAGTGGAGAAAGAAGAAGCTACAAATCCTATACCCCTGAAGTTG
1 AATCTTATCTCCTTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGTTA
* * *
42029747 GAGTGGGTCAAATT-AAATCTACCATA-AT-A
66 CAGTGGGTTAGATTGAAA-CTA-CA-ACATCA
* * * **
42029776 AATCTTATCTCCCTGAATATGCAGTGAAGCAAGATGAAGCTACAAATTTTATACCCCTAAAGTTA
1 AATCTTATCTCCTTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGTTA
* * *
42029841 CAGTGGGTTGGATTGAATCTAC--CATAA
66 CAGTGGGTTAGATTGAAACTACAACATCA
* * * *
42029868 GGAATCTTATCTCCTTGACGTTGCAGTGGAGTAAGATGAAGCTACAAATCCTATATCCCTAAAGT
1 --AATCTTATCTCCTTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGT
* * * *
42029933 TACAGTGGGTTAGATTGAATA-TACCATAACG
64 TACAGTGGGTTAGATTGAA-ACTACAACATCA
* * * *
42029964 AATCTTATCTCCCTGAAGATGTAGTGAAGTAAGATGAACCTACAAATCCTATATCCCTGAAA-TT
1 AATCTTATCTCCTTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCT-AAAGTT
** ** *
42030028 GTAGTGGAATGGATTGAAACTACAACATCA
65 ACAGTGGGTTAGATTGAAACTACAACATCA
*
42030058 AATCTTATCTCCTTGAAGTTGCA
1 AATCTTATCTCCTTGAAGATGCA
42030081 ATTGAACAAG
Statistics
Matches: 247, Mismatches: 48, Indels: 20
0.78 0.15 0.06
Matches are distributed among these distances:
91 2 0.01
92 1 0.00
93 2 0.01
94 236 0.96
95 5 0.02
96 1 0.00
ACGTcount: A:0.35, C:0.18, G:0.18, T:0.29
Consensus pattern (94 bp):
AATCTTATCTCCTTGAAGATGCAGTGAAGTAAGATGAAGCTACAAATCCTATACCCCTAAAGTTA
CAGTGGGTTAGATTGAAACTACAACATCA
Found at i:42030748 original size:16 final size:15
Alignment explanation
Indices: 42030723--42030760 Score: 51
Period size: 16 Copynumber: 2.5 Consensus size: 15
42030713 GTAACGTAAC
42030723 AAAAAAAGAATA-AGA
1 AAAAAAAGAATACA-A
42030738 AAAAAATAGAATACAA
1 AAAAAA-AGAATACAA
42030754 AAAAAAA
1 AAAAAAA
42030761 CTAAGTTGTT
Statistics
Matches: 21, Mismatches: 0, Indels: 4
0.84 0.00 0.16
Matches are distributed among these distances:
15 7 0.33
16 13 0.62
17 1 0.05
ACGTcount: A:0.82, C:0.03, G:0.08, T:0.08
Consensus pattern (15 bp):
AAAAAAAGAATACAA
Found at i:42031186 original size:12 final size:12
Alignment explanation
Indices: 42031157--42031202 Score: 56
Period size: 12 Copynumber: 3.7 Consensus size: 12
42031147 AGAATGTTTT
42031157 TTTTTTAAAATA
1 TTTTTTAAAATA
**
42031169 GGTTTTAAAATGA
1 TTTTTTAAAAT-A
42031182 TTTTTTTAAAATA
1 -TTTTTTAAAATA
42031195 TTTTTTAA
1 TTTTTTAA
42031203 CTTATATAGG
Statistics
Matches: 28, Mismatches: 4, Indels: 4
0.78 0.11 0.11
Matches are distributed among these distances:
12 17 0.61
13 2 0.07
14 9 0.32
ACGTcount: A:0.37, C:0.00, G:0.07, T:0.57
Consensus pattern (12 bp):
TTTTTTAAAATA
Found at i:42031645 original size:12 final size:12
Alignment explanation
Indices: 42031612--42031653 Score: 57
Period size: 12 Copynumber: 3.2 Consensus size: 12
42031602 TACTTATTTT
42031612 TTTATTTTTATTA
1 TTTA-TTTTATTA
42031625 TCGTTATTTTATTA
1 T--TTATTTTATTA
42031639 TTTATTTTATTA
1 TTTATTTTATTA
42031651 TTT
1 TTT
42031654 CTGGCACTTT
Statistics
Matches: 27, Mismatches: 0, Indels: 5
0.84 0.00 0.16
Matches are distributed among these distances:
12 14 0.52
13 1 0.04
14 9 0.33
15 3 0.11
ACGTcount: A:0.21, C:0.02, G:0.02, T:0.74
Consensus pattern (12 bp):
TTTATTTTATTA
Found at i:42031782 original size:25 final size:25
Alignment explanation
Indices: 42031753--42031803 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
42031743 TATGATAATA
*
42031753 TGATTATTGTTATTATTATTACCAT
1 TGATTAATGTTATTATTATTACCAT
*
42031778 TGATTAATGTTATTATTATTATCAT
1 TGATTAATGTTATTATTATTACCAT
42031803 T
1 T
42031804 ATAGTTATAT
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.29, C:0.06, G:0.08, T:0.57
Consensus pattern (25 bp):
TGATTAATGTTATTATTATTACCAT
Found at i:42034579 original size:30 final size:30
Alignment explanation
Indices: 42034533--42034626 Score: 134
Period size: 30 Copynumber: 3.1 Consensus size: 30
42034523 TTTTATTATG
*
42034533 CCAATATCTCGATACCCATATCTTTGACTTT
1 CCAATAT-TTGATACCCATATCTTTGACTTT
42034564 CCAATATTTGATACCCATATCTTTGACTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
* * * *
42034594 CTATTATTTGATACACATATCTTTGATTTT
1 CCAATATTTGATACCCATATCTTTGACTTT
42034624 CCA
1 CCA
42034627 TAAATATGGA
Statistics
Matches: 57, Mismatches: 6, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
30 50 0.88
31 7 0.12
ACGTcount: A:0.27, C:0.23, G:0.06, T:0.44
Consensus pattern (30 bp):
CCAATATTTGATACCCATATCTTTGACTTT
Found at i:42034588 original size:15 final size:15
Alignment explanation
Indices: 42034543--42034620 Score: 52
Period size: 15 Copynumber: 5.2 Consensus size: 15
42034533 CCAATATCTC
42034543 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
42034558 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
42034573 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
42034588 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
*
42034603 GATACACATATCTTT
1 GATACCCATATCTTT
42034618 GAT
1 GAT
42034621 TTTCCATAAA
Statistics
Matches: 44, Mismatches: 15, Indels: 8
0.66 0.22 0.12
Matches are distributed among these distances:
14 7 0.16
15 29 0.66
16 8 0.18
ACGTcount: A:0.27, C:0.21, G:0.08, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:42039241 original size:30 final size:30
Alignment explanation
Indices: 42039197--42039317 Score: 174
Period size: 30 Copynumber: 4.0 Consensus size: 30
42039187 TTTATTATGC
*
42039197 CAATATCTCGATACCCATATCTTTGACTTTT
1 CAATAT-TTGATACCCATATCTTTGACTTTT
*
42039228 CAATATTTGATACCCATATCTTTGACTTTC
1 CAATATTTGATACCCATATCTTTGACTTTT
42039258 CAATATTTGATACCCATATCTTTGAC-TTT
1 CAATATTTGATACCCATATCTTTGACTTTT
* *
42039287 CTATTATTTGATACACATATCTTTGA-TTTT
1 C-AATATTTGATACCCATATCTTTGACTTTT
42039317 C
1 C
42039318 CATAAATATG
Statistics
Matches: 83, Mismatches: 5, Indels: 5
0.89 0.05 0.05
Matches are distributed among these distances:
29 3 0.04
30 74 0.89
31 6 0.07
ACGTcount: A:0.26, C:0.21, G:0.07, T:0.45
Consensus pattern (30 bp):
CAATATTTGATACCCATATCTTTGACTTTT
Found at i:42039251 original size:15 final size:15
Alignment explanation
Indices: 42039206--42039313 Score: 60
Period size: 15 Copynumber: 7.2 Consensus size: 15
42039196 CCAATATCTC
42039206 GATACCCATATCTTT
1 GATACCCATATCTTT
*** *
42039221 GACTTTTCA-ATATTT
1 GA-TACCCATATCTTT
42039236 GATACCCATATCTTT
1 GATACCCATATCTTT
** *
42039251 GACTTTCCA-ATATTT
1 GA-TACCCATATCTTT
42039266 GATACCCATATCTTT
1 GATACCCATATCTTT
** * *
42039281 GACTTTCTAT-TATTT
1 GA-TACCCATATCTTT
*
42039296 GATACACATATCTTT
1 GATACCCATATCTTT
42039311 GAT
1 GAT
42039314 TTTCCATAAA
Statistics
Matches: 64, Mismatches: 23, Indels: 12
0.65 0.23 0.12
Matches are distributed among these distances:
14 10 0.16
15 43 0.67
16 11 0.17
ACGTcount: A:0.27, C:0.20, G:0.07, T:0.45
Consensus pattern (15 bp):
GATACCCATATCTTT
Found at i:42043086 original size:13 final size:13
Alignment explanation
Indices: 42043070--42043094 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42043060 TATATATTTT
42043070 TTGATAAATTTAA
1 TTGATAAATTTAA
42043083 TTGATAAATTTA
1 TTGATAAATTTA
42043095 TTTTTTTAAG
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.44, C:0.00, G:0.08, T:0.48
Consensus pattern (13 bp):
TTGATAAATTTAA
Found at i:42047258 original size:11 final size:11
Alignment explanation
Indices: 42047229--42047347 Score: 67
Period size: 11 Copynumber: 11.3 Consensus size: 11
42047219 AAATTAAAAT
*
42047229 AAAA-ATTTAA
1 AAAATATTTTA
42047239 AAAAGTATTTTA
1 AAAA-TATTTTA
42047251 AAAATATTTT-
1 AAAATATTTTA
**
42047261 -AAA-ATTAAA
1 AAAATATTTTA
42047270 AAAAGTATTTTA
1 AAAA-TATTTTA
*
42047282 AAAAAATTTTA
1 AAAATATTTTA
*
42047293 AAAAAATTTT-
1 AAAATATTTTA
42047303 -AAA-A--TTA
1 AAAATATTTTA
* *
42047310 AAAAAATTTAAA
1 AAAATATTT-TA
42047322 AAAAGTATTTTA
1 AAAA-TATTTTA
*
42047334 AAAGTATTTTA
1 AAAATATTTTA
42047345 AAA
1 AAA
42047348 TAAAAAAATA
Statistics
Matches: 86, Mismatches: 10, Indels: 25
0.71 0.08 0.21
Matches are distributed among these distances:
6 2 0.02
8 7 0.08
9 7 0.08
10 7 0.08
11 33 0.38
12 26 0.30
13 4 0.05
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (11 bp):
AAAATATTTTA
Found at i:42047272 original size:31 final size:31
Alignment explanation
Indices: 42047230--42047295 Score: 114
Period size: 31 Copynumber: 2.1 Consensus size: 31
42047220 AATTAAAATA
* *
42047230 AAAATTTAAAAAAGTATTTTAAAAATATTTT
1 AAAATTAAAAAAAGTATTTTAAAAAAATTTT
42047261 AAAATTAAAAAAAGTATTTTAAAAAAATTTT
1 AAAATTAAAAAAAGTATTTTAAAAAAATTTT
42047292 AAAA
1 AAAA
42047296 AAATTTTAAA
Statistics
Matches: 33, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
31 33 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (31 bp):
AAAATTAAAAAAAGTATTTTAAAAAAATTTT
Found at i:42047307 original size:52 final size:54
Alignment explanation
Indices: 42047229--42047347 Score: 147
Period size: 52 Copynumber: 2.2 Consensus size: 54
42047219 AAATTAAAAT
***
42047229 AAAAA-TTTAAAAAAGTATTTTAAAAATATTTTAAAA-TTAAAAAAAGTATTTTAA
1 AAAAATTTTAAAAAAG-ATTTTAAAAAT-TAAAAAAATTTAAAAAAAGTATTTTAA
42047283 AAAAATTTTAAAAAA-ATTTT-AAAATTAAAAAAATTTAAAAAAAGTATTTTAA
1 AAAAATTTTAAAAAAGATTTTAAAAATTAAAAAAATTTAAAAAAAGTATTTTAA
**
42047335 AAGTATTTTAAAA
1 AAAAATTTTAAAA
42047348 TAAAAAAATA
Statistics
Matches: 58, Mismatches: 5, Indels: 6
0.84 0.07 0.09
Matches are distributed among these distances:
51 5 0.09
52 34 0.59
53 5 0.09
54 5 0.09
55 9 0.16
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (54 bp):
AAAAATTTTAAAAAAGATTTTAAAAATTAAAAAAATTTAAAAAAAGTATTTTAA
Found at i:42047311 original size:28 final size:29
Alignment explanation
Indices: 42047279--42047336 Score: 91
Period size: 28 Copynumber: 2.0 Consensus size: 29
42047269 AAAAAGTATT
*
42047279 TTAAAAAAATTTTAAAAAA-ATTTTAAAA
1 TTAAAAAAATTTAAAAAAAGATTTTAAAA
42047307 TTAAAAAAATTTAAAAAAAGTATTTTAAAA
1 TTAAAAAAATTTAAAAAAAG-ATTTTAAAA
42047337 GTATTTTAAA
Statistics
Matches: 27, Mismatches: 1, Indels: 2
0.90 0.03 0.07
Matches are distributed among these distances:
28 18 0.67
30 9 0.33
ACGTcount: A:0.64, C:0.00, G:0.02, T:0.34
Consensus pattern (29 bp):
TTAAAAAAATTTAAAAAAAGATTTTAAAA
Found at i:42047323 original size:17 final size:17
Alignment explanation
Indices: 42047290--42047323 Score: 59
Period size: 17 Copynumber: 2.0 Consensus size: 17
42047280 TAAAAAAATT
*
42047290 TTAAAAAAATTTTAAAA
1 TTAAAAAAATTTAAAAA
42047307 TTAAAAAAATTTAAAAA
1 TTAAAAAAATTTAAAAA
42047324 AAGTATTTTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.68, C:0.00, G:0.00, T:0.32
Consensus pattern (17 bp):
TTAAAAAAATTTAAAAA
Found at i:42048195 original size:24 final size:24
Alignment explanation
Indices: 42048167--42048218 Score: 59
Period size: 24 Copynumber: 2.2 Consensus size: 24
42048157 TTCGTAGGTC
*
42048167 AAATAAATTATGCTAATAAATACT
1 AAATAAATTATACTAATAAATACT
* * * *
42048191 AAATATATTGTACTAGTAAATATT
1 AAATAAATTATACTAATAAATACT
42048215 AAAT
1 AAAT
42048219 CTTCTAGAAA
Statistics
Matches: 23, Mismatches: 5, Indels: 0
0.82 0.18 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.52, C:0.06, G:0.06, T:0.37
Consensus pattern (24 bp):
AAATAAATTATACTAATAAATACT
Found at i:42065465 original size:6 final size:6
Alignment explanation
Indices: 42065454--42065481 Score: 56
Period size: 6 Copynumber: 4.7 Consensus size: 6
42065444 GCTCGCAGAT
42065454 CCACCG CCACCG CCACCG CCACCG CCAC
1 CCACCG CCACCG CCACCG CCACCG CCAC
42065482 TACAACCAAA
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 22 1.00
ACGTcount: A:0.18, C:0.68, G:0.14, T:0.00
Consensus pattern (6 bp):
CCACCG
Found at i:42066866 original size:54 final size:54
Alignment explanation
Indices: 42066780--42066884 Score: 174
Period size: 54 Copynumber: 1.9 Consensus size: 54
42066770 AGAACTGCTT
*
42066780 TAGCTTCTATTTAGCTTCAAACAATTTTGGGTGTTGTCTTTCTTGCTAACCCTC
1 TAGCTTCTATTTAGCTTCAAACAATTTGGGGTGTTGTCTTTCTTGCTAACCCTC
* * *
42066834 TAGCTTCTATTTAGCTTCAGACCATTTGGGGTGTTGTTTTTCTTGCTAACC
1 TAGCTTCTATTTAGCTTCAAACAATTTGGGGTGTTGTCTTTCTTGCTAACC
42066885 GTCATCATCC
Statistics
Matches: 47, Mismatches: 4, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
54 47 1.00
ACGTcount: A:0.17, C:0.21, G:0.17, T:0.45
Consensus pattern (54 bp):
TAGCTTCTATTTAGCTTCAAACAATTTGGGGTGTTGTCTTTCTTGCTAACCCTC
Found at i:42067518 original size:158 final size:158
Alignment explanation
Indices: 42067225--42067536 Score: 511
Period size: 158 Copynumber: 2.0 Consensus size: 158
42067215 AGCCATGTCC
42067225 ATGGTTGGATTTATTGGTGTTCTCAAGTTCTGCACCTAGGCACACCTATGCTATGCGCCTTAGCG
1 ATGGTTGGATTTATTGGTGTTCTCAAGTTCTGCACCTAGGCACACCTATGCTATGCGCCTTAGCG
42067290 CTAGGCAACAAAAGCACCTCAACCCTTTCAGGCGAGGCACATTTGATCAGGCACACTTCTGGTGC
66 CTAGGCAACAAAAGCACCTCAACCCTTTCAGGCGAGGCACATTTGATCAGGCACACTTCTGGTGC
*
42067355 CCTTAACTGCATTATTTTTTGTAACGCT
131 CCTTAACTGCATTAATTTTTGTAACGCT
* **
42067383 ATGGTTGGATTTATCT-GTGTTCTCAAGTTTTGCACCTAGGCATGCCTATGCCT-TGCGCCTTAG
1 ATGGTTGGATTTAT-TGGTGTTCTCAAGTTCTGCACCTAGGCACACCTATG-CTATGCGCCTTAG
* * *
42067446 CGCTAGGCAACAAAAGCACCTCGACCCTTTCAGGCGAGGCGCATTTGGTCAGGCACACTTCTGGT
64 CGCTAGGCAACAAAAGCACCTCAACCCTTTCAGGCGAGGCACATTTGATCAGGCACACTTCTGGT
* *
42067511 GCTCTTAACTGCGTTAATTTTTGTAA
129 GCCCTTAACTGCATTAATTTTTGTAA
42067537 GGTGATAGGC
Statistics
Matches: 143, Mismatches: 9, Indels: 4
0.92 0.06 0.03
Matches are distributed among these distances:
158 140 0.98
159 3 0.02
ACGTcount: A:0.21, C:0.25, G:0.22, T:0.31
Consensus pattern (158 bp):
ATGGTTGGATTTATTGGTGTTCTCAAGTTCTGCACCTAGGCACACCTATGCTATGCGCCTTAGCG
CTAGGCAACAAAAGCACCTCAACCCTTTCAGGCGAGGCACATTTGATCAGGCACACTTCTGGTGC
CCTTAACTGCATTAATTTTTGTAACGCT
Found at i:42079498 original size:6 final size:6
Alignment explanation
Indices: 42079484--42079524 Score: 50
Period size: 6 Copynumber: 6.8 Consensus size: 6
42079474 AGTTCAGATT
42079484 AAAAA- AAAAAC AAAAAAAC AAAAAC AAAAA- AAAAAC AAAAA
1 AAAAAC AAAAAC --AAAAAC AAAAAC AAAAAC AAAAAC AAAAA
42079525 ATAAAAGTGA
Statistics
Matches: 32, Mismatches: 0, Indels: 7
0.82 0.00 0.18
Matches are distributed among these distances:
5 10 0.31
6 16 0.50
8 6 0.19
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (6 bp):
AAAAAC
Found at i:42079500 original size:8 final size:8
Alignment explanation
Indices: 42079487--42079525 Score: 60
Period size: 8 Copynumber: 4.8 Consensus size: 8
42079477 TCAGATTAAA
42079487 AAAAAAAC
1 AAAAAAAC
42079495 AAAAAAAC
1 AAAAAAAC
*
42079503 AAAAACAAA
1 AAAAA-AAC
42079512 AAAAAAAC
1 AAAAAAAC
42079520 AAAAAA
1 AAAAAA
42079526 TAAAAGTGAA
Statistics
Matches: 28, Mismatches: 2, Indels: 2
0.88 0.06 0.06
Matches are distributed among these distances:
8 21 0.75
9 7 0.25
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (8 bp):
AAAAAAAC
Found at i:42079506 original size:14 final size:13
Alignment explanation
Indices: 42079484--42079530 Score: 62
Period size: 14 Copynumber: 3.6 Consensus size: 13
42079474 AGTTCAGATT
42079484 AAAAAAAAAACAA
1 AAAAAAAAAACAA
42079497 AAAAACAAAAAC--
1 AAAAA-AAAAACAA
42079509 AAAAAAAAAACAA
1 AAAAAAAAAACAA
42079522 AAAATAAAA
1 AAAA-AAAA
42079531 GTGAAAGAAA
Statistics
Matches: 30, Mismatches: 0, Indels: 7
0.81 0.00 0.19
Matches are distributed among these distances:
11 6 0.20
12 5 0.17
13 9 0.30
14 10 0.33
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (13 bp):
AAAAAAAAAACAA
Found at i:42079515 original size:17 final size:18
Alignment explanation
Indices: 42079485--42079525 Score: 66
Period size: 17 Copynumber: 2.3 Consensus size: 18
42079475 GTTCAGATTA
42079485 AAAAAAAAACAAAAAAAC
1 AAAAAAAAACAAAAAAAC
*
42079503 AAAAACAAA-AAAAAAAC
1 AAAAAAAAACAAAAAAAC
42079520 AAAAAA
1 AAAAAA
42079526 TAAAAGTGAA
Statistics
Matches: 21, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
17 13 0.62
18 8 0.38
ACGTcount: A:0.90, C:0.10, G:0.00, T:0.00
Consensus pattern (18 bp):
AAAAAAAAACAAAAAAAC
Found at i:42079530 original size:17 final size:16
Alignment explanation
Indices: 42079486--42079530 Score: 63
Period size: 17 Copynumber: 2.7 Consensus size: 16
42079476 TTCAGATTAA
42079486 AAAAAAAACAAAAAAAC
1 AAAAAAAA-AAAAAAAC
42079503 AAAAACAAAAAAAAAAC
1 AAAAA-AAAAAAAAAAC
*
42079520 AAAAAATAAAA
1 AAAAAAAAAAA
42079531 GTGAAAGAAA
Statistics
Matches: 26, Mismatches: 1, Indels: 3
0.87 0.03 0.10
Matches are distributed among these distances:
16 5 0.19
17 18 0.69
18 3 0.12
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (16 bp):
AAAAAAAAAAAAAAAC
Found at i:42079550 original size:12 final size:11
Alignment explanation
Indices: 42079484--42079530 Score: 58
Period size: 11 Copynumber: 3.9 Consensus size: 11
42079474 AGTTCAGATT
42079484 AAAAAAAAAAC
1 AAAAAAAAAAC
42079495 AAAAAAACAAAAAC
1 --AAAAA-AAAAAC
42079509 AAAAAAAAAAC
1 AAAAAAAAAAC
42079520 AAAAAATAAAA
1 AAAAAA-AAAA
42079531 GTGAAAGAAA
Statistics
Matches: 32, Mismatches: 0, Indels: 5
0.86 0.00 0.14
Matches are distributed among these distances:
11 12 0.38
12 9 0.28
13 5 0.16
14 6 0.19
ACGTcount: A:0.89, C:0.09, G:0.00, T:0.02
Consensus pattern (11 bp):
AAAAAAAAAAC
Found at i:42080708 original size:29 final size:30
Alignment explanation
Indices: 42080649--42080706 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
42080639 TCCGAGCCTT
*
42080649 GGGGCAAAAATGTAATTATGTAAAAGTTTA
1 GGGGCAAAAATGTAATTATGAAAAAGTTTA
* *
42080679 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGCAAAAATGTAATTATGAAAAAGTT
42080707 AGAGTCGAGG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.41, C:0.03, G:0.24, T:0.31
Consensus pattern (30 bp):
GGGGCAAAAATGTAATTATGAAAAAGTTTA
Found at i:42080936 original size:13 final size:13
Alignment explanation
Indices: 42080918--42080949 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
42080908 TTTCCAGAAA
42080918 TTATGAATTTATT
1 TTATGAATTTATT
42080931 TTATGAATTTATT
1 TTATGAATTTATT
*
42080944 TGATGA
1 TTATGA
42080950 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:42081157 original size:50 final size:50
Alignment explanation
Indices: 42081044--42081285 Score: 297
Period size: 50 Copynumber: 4.7 Consensus size: 50
42081034 ATTTGGGTAA
* * *
42081044 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCA-CC--GAGA-C--G
*
42081100 AGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
42081150 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGATG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
* * *
42081200 AGAGGTCCCCTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
1 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
**
42081250 AGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
42081286 TTTGGCATGT
Statistics
Matches: 166, Mismatches: 18, Indels: 9
0.86 0.09 0.05
Matches are distributed among these distances:
49 1 0.01
50 91 0.55
51 29 0.17
52 1 0.01
53 3 0.02
55 2 0.01
56 39 0.23
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.20
Consensus pattern (50 bp):
AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGAGACG
Found at i:42081233 original size:100 final size:103
Alignment explanation
Indices: 42081044--42081293 Score: 364
Period size: 100 Copynumber: 2.4 Consensus size: 103
42081034 ATTTGGGTAA
42081044 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCCC
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCCC
* *
42081109 CTGTAAGACCATGTCTGGGACATGGCATGGGCACCGA-GACG
63 CTATAAGACCATGTCTGGGACATGGCATGGGCACC-ATCACG
* * *
42081150 AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCTA
1 AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
42081212 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
66 TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
* *
42081250 AGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
42081294 GTTATTATCA
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 51 0.38
101 39 0.29
105 2 0.02
106 40 0.30
ACGTcount: A:0.26, C:0.24, G:0.29, T:0.21
Consensus pattern (103 bp):
AGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCTA
TAAGACCATGTCTGGGACATGGCATGGGCACCATCACG
Found at i:42082691 original size:54 final size:55
Alignment explanation
Indices: 42082627--42082740 Score: 203
Period size: 55 Copynumber: 2.1 Consensus size: 55
42082617 TTTTTTATTG
42082627 AATTTGTTA-TTTTTTGGAATACCTCATTCTTTTCCAAGATATACATTCCCAATC
1 AATTTGTTATTTTTTTGGAATACCTCATTCTTTTCCAAGATATACATTCCCAATC
* *
42082681 AATTTGTTATTTTTTTTGAATACCTCATTCTTTTCCAAGATATATATTCCCAATC
1 AATTTGTTATTTTTTTGGAATACCTCATTCTTTTCCAAGATATACATTCCCAATC
42082736 AATTT
1 AATTT
42082741 CTTTGTTATC
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
54 9 0.16
55 48 0.84
ACGTcount: A:0.28, C:0.18, G:0.06, T:0.47
Consensus pattern (55 bp):
AATTTGTTATTTTTTTGGAATACCTCATTCTTTTCCAAGATATACATTCCCAATC
Found at i:42083736 original size:44 final size:44
Alignment explanation
Indices: 42083632--42083753 Score: 131
Period size: 44 Copynumber: 2.8 Consensus size: 44
42083622 GAAGATGGAA
* * *
42083632 AATCTTATCTCCCTAAAGTTGCAGTGGAGCAGATTAAAACTGAT
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATCAAAACTGAT
* * * *
42083676 AATCCTATCCCCTTGAAGTTGCAGTGGAGCAGATCACAACT-TT
1 AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATCAAAACTGAT
* * *
42083719 GGATCTTATCTCTTTGAAGTTGCAG-AGAGCAGATC
1 -AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATC
42083754 CCATCCTCCT
Statistics
Matches: 65, Mismatches: 12, Indels: 3
0.81 0.15 0.04
Matches are distributed among these distances:
43 10 0.15
44 55 0.85
ACGTcount: A:0.30, C:0.20, G:0.20, T:0.30
Consensus pattern (44 bp):
AATCTTATCTCCTTGAAGTTGCAGTGGAGCAGATCAAAACTGAT
Found at i:42083821 original size:45 final size:45
Alignment explanation
Indices: 42083756--42083866 Score: 170
Period size: 45 Copynumber: 2.5 Consensus size: 45
42083746 AGCAGATCCC
*
42083756 ATCCTCCTGAAGTTGTAGTGGGGCAGACTGAAGATAGCAAGTCTT
1 ATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATAGCAAGTCTT
* * *
42083801 ATCCTCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGTAAGTCTT
1 ATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATAGCAAGTCTT
42083846 AT-CTCCTTGAAGTTGCAGTGG
1 ATCCTCC-TGAAGTTGCAGTGG
42083867 AGTAGATTAA
Statistics
Matches: 60, Mismatches: 5, Indels: 2
0.90 0.07 0.03
Matches are distributed among these distances:
44 4 0.07
45 56 0.93
ACGTcount: A:0.25, C:0.18, G:0.29, T:0.28
Consensus pattern (45 bp):
ATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATAGCAAGTCTT
Found at i:42083937 original size:44 final size:43
Alignment explanation
Indices: 42083842--42084294 Score: 262
Period size: 44 Copynumber: 10.6 Consensus size: 43
42083832 AGATGGTAAG
* *
42083842 TCTTATCTCCTTGAAGTTGCAGTGGAGTA-GATTAAAGCCGATA-A
1 TCTTATCTCCCTGAAGTTGCAGTGGAG-AGGATTAAAACC--TAGA
* *
42083886 TCCTATCTCCCTGAAGTTGCATTGGAGAGGATTAAAACCTCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCT-AGA
* * *** *
42083930 TCTTATCTCTCTGAAGTTGCAG-AGAGCA-GA-TCGCATCTAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAG-AGGATTAAAACCTAGA
*
42083970 TCTTATCTCCCTGAAGTTGCATTGGAGAGGATTAAAACCTCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCT-AGA
* * *** *
42084014 TCTTATCTCTCTGAAGTTGCAG-AGAGCA-GA-TCGCATCTAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAG-AGGATTAAAACCTAGA
* * *
42084054 TCTTATCTCCCTGAAGTTGCAGTGGAGTA-GACTAAGTAAGCAAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAG-AGGATTAA--AACCTAGA
* * ** *
42084098 TCTTATC-CTCCTGAAGTTGCAGTGGGGCA-GACTGAAGATGGCAAG-
1 TCTTATCTC-CCTGAAGTTGCAGTGGAG-AGGA-TTAA-A-ACCTAGA
* *
42084143 TCTTATCTCCCTGAAGTTGCAGAGGAGCA-GATTAAAGCCGATA-A
1 TCTTATCTCCCTGAAGTTGCAGTGGAG-AGGATTAAAACC--TAGA
* * *
42084187 TCCTATCACCCTGAAGTTGCAGTGGAGCGGATTAAAACCTCAGA
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCT-AGA
* * * *** *
42084231 TCTTATCTCTCTGAAGTTGCAG-AGAGAAGA-TCGCATCTAG-
1 TCTTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCTAGA
42084271 TCTTATCTCCCTGAAGTTGCAGTG
1 TCTTATCTCCCTGAAGTTGCAGTG
42084295 AAGTAGACTA
Statistics
Matches: 322, Mismatches: 62, Indels: 53
0.74 0.14 0.12
Matches are distributed among these distances:
40 63 0.20
41 17 0.05
42 21 0.07
43 22 0.07
44 164 0.51
45 34 0.11
46 1 0.00
ACGTcount: A:0.28, C:0.21, G:0.23, T:0.28
Consensus pattern (43 bp):
TCTTATCTCCCTGAAGTTGCAGTGGAGAGGATTAAAACCTAGA
Found at i:42083992 original size:84 final size:84
Alignment explanation
Indices: 42083889--42084080 Score: 375
Period size: 84 Copynumber: 2.3 Consensus size: 84
42083879 CCGATAATCC
42083889 TATCTCCCTGAAGTTGCATTGGAGAGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCATTGGAGAGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAG
42083954 AGCAGATCGCATCTAGTCT
66 AGCAGATCGCATCTAGTCT
42083973 TATCTCCCTGAAGTTGCATTGGAGAGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCATTGGAGAGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAG
42084038 AGCAGATCGCATCTAGTCT
66 AGCAGATCGCATCTAGTCT
*
42084057 TATCTCCCTGAAGTTGCAGTGGAG
1 TATCTCCCTGAAGTTGCATTGGAG
42084081 TAGACTAAGT
Statistics
Matches: 107, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
84 107 1.00
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.30
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCATTGGAGAGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAG
AGCAGATCGCATCTAGTCT
Found at i:42084102 original size:84 final size:84
Alignment explanation
Indices: 42083889--42084119 Score: 335
Period size: 84 Copynumber: 2.8 Consensus size: 84
42083879 CCGATAATCC
* * *
42083889 TATCTCCCTGAAGTTGCATTGGAGAGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGAGGACTAAAACCTAAGATCTTATCTCTCTGAAGTTGCAGAG
42083954 AGCAGATCGCATCTAGTCT
66 AGCAGATCGCATCTAGTCT
* * *
42083973 TATCTCCCTGAAGTTGCATTGGAGAGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAG
1 TATCTCCCTGAAGTTGCAGTGGAGAGGACTAAAACCTAAGATCTTATCTCTCTGAAGTTGCAGAG
42084038 AGCAGATCGCATCTAGTCT
66 AGCAGATCGCATCTAGTCT
*
42084057 TATCTCCCTGAAGTTGCAGTGGAGTA-GACTAAGTAAGC-AAG-TCTTATC-CTCCTGAAGTTGC
1 TATCTCCCTGAAGTTGCAGTGGAG-AGGACTAA--AACCTAAGATCTTATCTCT-CTGAAGTTGC
42084118 AG
62 AG
42084120 TGGGGCAGAC
Statistics
Matches: 139, Mismatches: 4, Indels: 8
0.92 0.03 0.05
Matches are distributed among these distances:
83 2 0.01
84 131 0.94
85 3 0.02
86 3 0.02
ACGTcount: A:0.27, C:0.21, G:0.22, T:0.29
Consensus pattern (84 bp):
TATCTCCCTGAAGTTGCAGTGGAGAGGACTAAAACCTAAGATCTTATCTCTCTGAAGTTGCAGAG
AGCAGATCGCATCTAGTCT
Found at i:42084222 original size:301 final size:292
Alignment explanation
Indices: 42083720--42084291 Score: 914
Period size: 301 Copynumber: 1.9 Consensus size: 292
42083710 CACAACTTTG
* * *
42083720 GATCTTATCTCTTTGAAGTTGCAGAGAGCAGATCCCATCCTCCTGAAGTTGTAGTGGGGCAGACT
1 GATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCCCATCCTCCTGAAGTTGCAGTGGAGCAGACT
*
42083785 GAAGATAGCAAGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGTAAGTCTTATCT
66 GAAGATAGCAAGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCT
* * * * *
42083850 CCTTGAAGTTGCAGTGGAGTAGATTAAAGCCGATAATCCTATCTCCCTGAAGTTGCATTGGAGAG
131 CCCTGAAGTTGCAGAGGAGCAGATTAAAGCCGATAATCCTATCACCCTGAAGTTGCAGTGGAGAG
*
42083915 GATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCC
196 GATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGAAGATCGCATCTAGTCTTATCTCC
42083980 CTGAAGTTGCATTGGAGAGGATTAAAACCTCA
261 CTGAAGTTGCATTGGAGAGGATTAAAACCTCA
42084012 GATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCGCATCTAGTCTTATCTCCCTGAAGTTGCAGT
1 GATCTTATCTCTCTGAAGTTGCAGAGAGCAGATC-C--C-A-TC----CT-CCTGAAGTTGCAGT
* *
42084077 GGAGTAGACT-AAG-TAAGCAAGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGATGGC
56 GGAGCAGACTGAAGAT-AGCAAGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGC
42084140 AAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGCCGATAATCCTATCACCCTGAAGTT
120 AAGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGCCGATAATCCTATCACCCTGAAGTT
*
42084205 GCAGTGGAGCGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGAAGATCGCATCTA
185 GCAGTGGAGAGGATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGAAGATCGCATCTA
42084270 GTCTTATCTCCCTGAAGTTGCA
250 GTCTTATCTCCCTGAAGTTGCA
42084292 GTGAAGTAGA
Statistics
Matches: 256, Mismatches: 13, Indels: 13
0.91 0.05 0.05
Matches are distributed among these distances:
292 33 0.13
293 1 0.00
295 1 0.00
296 1 0.00
297 2 0.01
300 1 0.00
301 196 0.77
302 21 0.08
ACGTcount: A:0.28, C:0.21, G:0.24, T:0.28
Consensus pattern (292 bp):
GATCTTATCTCTCTGAAGTTGCAGAGAGCAGATCCCATCCTCCTGAAGTTGCAGTGGAGCAGACT
GAAGATAGCAAGTCTTATCCTCCTAAAGTTGCAGTGGGGCAGACTGAAGATGGCAAGTCTTATCT
CCCTGAAGTTGCAGAGGAGCAGATTAAAGCCGATAATCCTATCACCCTGAAGTTGCAGTGGAGAG
GATTAAAACCTCAGATCTTATCTCTCTGAAGTTGCAGAGAGAAGATCGCATCTAGTCTTATCTCC
CTGAAGTTGCATTGGAGAGGATTAAAACCTCA
Found at i:42084347 original size:44 final size:42
Alignment explanation
Indices: 42084052--42084347 Score: 149
Period size: 44 Copynumber: 6.8 Consensus size: 42
42084042 GATCGCATCT
* *
42084052 AGTCTTATCTCCCTGAAGTTGCAGTGGAGTAGACTAAGTAAGCA
1 AGTCTTATCT-CCTGAAGTTGCAGTGG-GCAGACTAAATAAGCA
*
42084096 AGTCTTATCCTCCTGAAGTTGCAGTGGGGCAGACTGAAGAT-GGCA
1 AGTCTTAT-CTCCTGAAGTTGCAGT-GGGCAGACT-AA-ATAAGCA
* * ***
42084141 AGTCTTATCTCCCTGAAGTTGCAGAGGAGCAGATTAAAGCCG-A
1 AGTCTTATCT-CCTGAAGTTGCAGTGG-GCAGACTAAATAAGCA
* * * * * * *
42084184 TAATCCTATCACCCTGAAGTTGCAGTGGAGCGGA-TTAA-AACCTC
1 -AGTCTTATC-TCCTGAAGTTGCAGTGG-GCAGACTAAATAAGC-A
* * * ** *
42084228 AGATCTTATCTCTCTGAAGTTGCAGAGAGAAGA-TCGCAT---CT
1 AG-TCTTATCTC-CTGAAGTTGCAGTGGGCAGACT-AAATAAGCA
* * *
42084269 AGTCTTATCTCCCTGAAGTTGCAGTGAAGTAGACTAAATAAGAA
1 AGTCTTATCT-CCTGAAGTTGCAGTG-GGCAGACTAAATAAGCA
42084313 AGTCTTATCCTCCTGAAGTTGCAGTGAGGCAGACT
1 AGTCTTAT-CTCCTGAAGTTGCAGTG-GGCAGACT
42084348 GAAGATGGCA
Statistics
Matches: 195, Mismatches: 35, Indels: 44
0.71 0.13 0.16
Matches are distributed among these distances:
40 21 0.11
41 10 0.05
42 2 0.01
43 11 0.06
44 112 0.57
45 38 0.19
46 1 0.01
ACGTcount: A:0.29, C:0.20, G:0.24, T:0.26
Consensus pattern (42 bp):
AGTCTTATCTCCTGAAGTTGCAGTGGGCAGACTAAATAAGCA
Found at i:42084588 original size:21 final size:19
Alignment explanation
Indices: 42084523--42084605 Score: 130
Period size: 19 Copynumber: 4.3 Consensus size: 19
42084513 AATTTTTGAG
*
42084523 GATATGCAATCTTATATAT
1 GATATGCAATCTTAGATAT
*
42084542 GATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATAT
42084561 GATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATAT
42084580 GATATATGCAATCTTAGATAT
1 G--ATATGCAATCTTAGATAT
42084601 GATAT
1 GATAT
42084606 NNNNNNNNNN
Statistics
Matches: 59, Mismatches: 3, Indels: 4
0.89 0.05 0.06
Matches are distributed among these distances:
19 40 0.68
21 19 0.32
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (19 bp):
GATATGCAATCTTAGATAT
Found at i:42084598 original size:40 final size:38
Alignment explanation
Indices: 42084523--42084605 Score: 130
Period size: 40 Copynumber: 2.1 Consensus size: 38
42084513 AATTTTTGAG
*
42084523 GATATGCAATCTTATATATGATATGCAATCCTAGATAT
1 GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
*
42084561 GATATGCAATCTTAGATATGATATATGCAATCTTAGATAT
1 GATATGCAATCTTAGATATG--ATATGCAATCCTAGATAT
42084601 GATAT
1 GATAT
42084606 NNNNNNNNNN
Statistics
Matches: 41, Mismatches: 2, Indels: 2
0.91 0.04 0.04
Matches are distributed among these distances:
38 19 0.46
40 22 0.54
ACGTcount: A:0.37, C:0.11, G:0.14, T:0.37
Consensus pattern (38 bp):
GATATGCAATCTTAGATATGATATGCAATCCTAGATAT
Found at i:42091811 original size:9 final size:9
Alignment explanation
Indices: 42091770--42091817 Score: 51
Period size: 9 Copynumber: 5.3 Consensus size: 9
42091760 CTCACATCCT
42091770 ATTCTCTCA
1 ATTCTCTCA
* * *
42091779 AATCTTTCT
1 ATTCTCTCA
42091788 ATTCTCTCA
1 ATTCTCTCA
* *
42091797 ACTCTCTAA
1 ATTCTCTCA
42091806 ATTCTCTCA
1 ATTCTCTCA
42091815 ATT
1 ATT
42091818 TTCACAAGCT
Statistics
Matches: 29, Mismatches: 10, Indels: 0
0.74 0.26 0.00
Matches are distributed among these distances:
9 29 1.00
ACGTcount: A:0.25, C:0.29, G:0.00, T:0.46
Consensus pattern (9 bp):
ATTCTCTCA
Found at i:42096047 original size:10 final size:10
Alignment explanation
Indices: 42096027--42096059 Score: 57
Period size: 10 Copynumber: 3.2 Consensus size: 10
42096017 TTTTTAGGAT
42096027 TTTATTTTATC
1 TTTA-TTTATC
42096038 TTTATTTATC
1 TTTATTTATC
42096048 TTTATTTATC
1 TTTATTTATC
42096058 TT
1 TT
42096060 CAAACAAATA
Statistics
Matches: 22, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
10 18 0.82
11 4 0.18
ACGTcount: A:0.18, C:0.09, G:0.00, T:0.73
Consensus pattern (10 bp):
TTTATTTATC
Found at i:42096761 original size:13 final size:13
Alignment explanation
Indices: 42096743--42096772 Score: 60
Period size: 13 Copynumber: 2.3 Consensus size: 13
42096733 ACTGGAGACT
42096743 GAATCTCCCATAA
1 GAATCTCCCATAA
42096756 GAATCTCCCATAA
1 GAATCTCCCATAA
42096769 GAAT
1 GAAT
42096773 TTCCTTTCTC
Statistics
Matches: 17, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 17 1.00
ACGTcount: A:0.40, C:0.27, G:0.10, T:0.23
Consensus pattern (13 bp):
GAATCTCCCATAA
Found at i:42102194 original size:25 final size:24
Alignment explanation
Indices: 42102159--42102267 Score: 101
Period size: 25 Copynumber: 4.4 Consensus size: 24
42102149 AGCATGTAAT
* *
42102159 CGGGAACCTCTTCCGAGCCATGTAA
1 CGGGAAGCTCTTACGAGCCAT-TAA
* **
42102184 CGGGAAGCTCTTATGAGCTGTATAA
1 CGGGAAGCTCTTACGAGCCAT-TAA
* *
42102209 CGGGAAGCTCTTGCGAGCCAATTAT
1 CGGGAAGCTCTTACGAGCC-ATTAA
* * *
42102234 CGGGAATCTCATACGAGCCATAAA
1 CGGGAAGCTCTTACGAGCCATTAA
42102258 CGGGAAGCTC
1 CGGGAAGCTC
42102268 AAGAGAGCCA
Statistics
Matches: 66, Mismatches: 17, Indels: 3
0.77 0.20 0.03
Matches are distributed among these distances:
24 12 0.18
25 53 0.80
26 1 0.02
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.21
Consensus pattern (24 bp):
CGGGAAGCTCTTACGAGCCATTAA
Found at i:42102238 original size:50 final size:49
Alignment explanation
Indices: 42102159--42102267 Score: 121
Period size: 50 Copynumber: 2.2 Consensus size: 49
42102149 AGCATGTAAT
* * * **
42102159 CGGGAACCTCTTCCGAGCCATGTAACGGGAAGCTCTTATGAGCTGTATAA
1 CGGGAAGCTCTTCCGAGCCATGTAACGGGAAGCTCATACGAGCCATA-AA
* * *
42102209 CGGGAAGCTCTTGCGAGCCAAT-TATCGGGAATCTCATACGAGCCATAAA
1 CGGGAAGCTCTTCCGAGCC-ATGTAACGGGAAGCTCATACGAGCCATAAA
42102258 CGGGAAGCTC
1 CGGGAAGCTC
42102268 AAGAGAGCCA
Statistics
Matches: 50, Mismatches: 8, Indels: 3
0.82 0.13 0.05
Matches are distributed among these distances:
49 12 0.24
50 36 0.72
51 2 0.04
ACGTcount: A:0.28, C:0.25, G:0.27, T:0.21
Consensus pattern (49 bp):
CGGGAAGCTCTTCCGAGCCATGTAACGGGAAGCTCATACGAGCCATAAA
Found at i:42102298 original size:25 final size:24
Alignment explanation
Indices: 42102261--42102328 Score: 66
Period size: 25 Copynumber: 2.8 Consensus size: 24
42102251 CCATAAACGG
42102261 GAAGCTCAA-GAGAGCCATTACTCGA
1 GAAGCT-AATGAGAGCCATTA-TCGA
*
42102286 GAAGCTAATGAGAGCCAAATATCGA
1 GAAGCTAATGAGAGCC-ATTATCGA
* **
42102311 GAAGATTGTGAGAGCCAT
1 GAAGCTAATGAGAGCCAT
42102329 ATAACATGCT
Statistics
Matches: 36, Mismatches: 5, Indels: 5
0.78 0.11 0.11
Matches are distributed among these distances:
24 3 0.08
25 30 0.83
26 3 0.08
ACGTcount: A:0.38, C:0.18, G:0.26, T:0.18
Consensus pattern (24 bp):
GAAGCTAATGAGAGCCATTATCGA
Found at i:42111433 original size:13 final size:13
Alignment explanation
Indices: 42111415--42111441 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
42111405 GTATTACTCC
42111415 TCTTTATCTCATA
1 TCTTTATCTCATA
42111428 TCTTTATCTCATA
1 TCTTTATCTCATA
42111441 T
1 T
42111442 TTGCTATGGG
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.22, C:0.22, G:0.00, T:0.56
Consensus pattern (13 bp):
TCTTTATCTCATA
Found at i:42113318 original size:25 final size:25
Alignment explanation
Indices: 42113270--42113318 Score: 73
Period size: 25 Copynumber: 2.0 Consensus size: 25
42113260 TTTAATTTTT
42113270 TATTAAATTTAAAATAAAATATTAA
1 TATTAAATTTAAAATAAAATATTAA
*
42113295 TATTATATTATAAAATAAAA-ATTA
1 TATTAAATT-TAAAATAAAATATTA
42113319 TTAAAATGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
25 12 0.55
26 10 0.45
ACGTcount: A:0.59, C:0.00, G:0.00, T:0.41
Consensus pattern (25 bp):
TATTAAATTTAAAATAAAATATTAA
Found at i:42114033 original size:21 final size:22
Alignment explanation
Indices: 42113993--42114036 Score: 65
Period size: 21 Copynumber: 2.0 Consensus size: 22
42113983 TGACTTAATT
42113993 GATATAACTTGAAAATTTTAAA
1 GATATAACTTGAAAATTTTAAA
42114015 GATATAA-TT-AAATATTTTAAA
1 GATATAACTTGAAA-ATTTTAAA
42114036 G
1 G
42114037 TCTAAAAACT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
20 3 0.14
21 11 0.52
22 7 0.33
ACGTcount: A:0.50, C:0.02, G:0.09, T:0.39
Consensus pattern (22 bp):
GATATAACTTGAAAATTTTAAA
Found at i:42119264 original size:48 final size:48
Alignment explanation
Indices: 42119202--42119528 Score: 310
Period size: 48 Copynumber: 7.0 Consensus size: 48
42119192 AAAAGTTGCT
* * * *
42119202 AATATGTTGTGGATGAACCACTAGTCGTGTAGATAAACTGCCGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * * * *
42119250 AGTATGTTATGGATGAACCACTTGTCTTGCATATAAATTGCCGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * * * * *
42119298 AATACGTTCTGGATGAACCACTTGTCATGTAGATAAA-AGCTG--T-T
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * * *
42119342 AATACATTATGGATAAACCACTTGTCGTGCAGATAAA-AGCTG-CT--
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* *
42119386 AATAAGTTATGGATGAACCACTGGTTGTGCAGATAAACTGCCGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * *
42119434 AATACGTTGTGGATGAACCACTGGTCGTGCAGTTAAACTACAGACTAA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
* * * *
42119482 AATATGTTGTGGATGAACCACTGGTCATGCAGACAAACTGCCGACTA
1 AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTA
42119529 CTCCCTCCCT
Statistics
Matches: 234, Mismatches: 40, Indels: 10
0.82 0.14 0.04
Matches are distributed among these distances:
44 69 0.29
45 5 0.02
46 2 0.01
47 3 0.01
48 155 0.66
ACGTcount: A:0.33, C:0.18, G:0.21, T:0.28
Consensus pattern (48 bp):
AATACGTTATGGATGAACCACTGGTCGTGCAGATAAACTGCCGACTAA
Found at i:42119677 original size:34 final size:34
Alignment explanation
Indices: 42119571--42119917 Score: 176
Period size: 34 Copynumber: 10.2 Consensus size: 34
42119561 ATGCAACATG
* * *
42119571 ACATGTTTATAACAGATCAATA-TGATAGCAAT-A
1 ACATGCTTATAATAGATCAATACAG-TAGCAATAA
* * *
42119604 ACATGCTTATACTA-AGTCGATACAGTATCAACT-A
1 ACATGCTTATAATAGA-TCAATACAGTAGCAA-TAA
* **
42119638 TCATGCTTATAATAGATCAATATGGTAGCAATAA
1 ACATGCTTATAATAGATCAATACAGTAGCAATAA
* * * * ** *
42119672 ACATGCTTGTGACAAATTGATACAGTAGCAATTA
1 ACATGCTTATAATAGATCAATACAGTAGCAATAA
* * * * *
42119706 GCATGCCTATAACT-GATAAATACGGTAGCAATTA
1 ACATGCTTATAA-TAGATCAATACAGTAGCAATAA
* * *
42119740 TCATGCTTATAATAAATCAATGCAGTAGCAATAA
1 ACATGCTTATAATAGATCAATACAGTAGCAATAA
* *
42119774 ACATGCTTGTGACA-AG-TCAATATC-GTAGCAATTA
1 ACATGCTTAT-A-ATAGATCAATA-CAGTAGCAATAA
* * * *
42119808 ACATGC-TATTAACATATCAATACAGTGGTAATAA
1 ACATGCTTA-TAATAGATCAATACAGTAGCAATAA
* * * *
42119842 ACATGCTTGTGACA-AG-TCGATACAATAGCAATTA
1 ACATGCTTAT-A-ATAGATCAATACAGTAGCAATAA
* * * *
42119876 ACATGCTTATAATAGACCATTACAGTATCATTAA
1 ACATGCTTATAATAGATCAATACAGTAGCAATAA
*
42119910 ACTTGCTT
1 ACATGCTT
42119918 CTATCATGTA
Statistics
Matches: 231, Mismatches: 64, Indels: 37
0.70 0.19 0.11
Matches are distributed among these distances:
32 3 0.01
33 30 0.13
34 189 0.82
35 7 0.03
36 2 0.01
ACGTcount: A:0.40, C:0.16, G:0.14, T:0.30
Consensus pattern (34 bp):
ACATGCTTATAATAGATCAATACAGTAGCAATAA
Found at i:42119771 original size:68 final size:68
Alignment explanation
Indices: 42119578--42119814 Score: 210
Period size: 68 Copynumber: 3.5 Consensus size: 68
42119568 ATGACATGTT
* * * * * * *
42119578 TATAACAGATCAATATGATAGCAA-TAACATGCTTATACTAAGTCGATACAGTATCAACTATCAT
1 TATAACTGATCAATATGGTAGCAATTAACATGCTTATAATAAATCGATACAGTAGCAATTAGCAT
*
42119642 GCT
66 GCC
* * * * *
42119645 TATAA-TAGATCAATATGGTAGCAATAAACATGCTTGTGACAAATTGATACAGTAGCAATTAGCA
1 TATAACT-GATCAATATGGTAGCAATTAACATGCTTATAATAAATCGATACAGTAGCAATTAGCA
42119709 TGCC
65 TGCC
* * * * * * *
42119713 TATAACTGATAAATACGGTAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACAT
1 TATAACTGATCAATATGGTAGCAATTAACATGCTTATAATAAATCGATACAGTAGCAATTAGCAT
*
42119778 GCT
66 GCC
* * * *
42119781 TGTGAC-AAGTCAATATCGTAGCAATTAACATGCT
1 TATAACTGA-TCAATATGGTAGCAATTAACATGCT
42119815 ATTAACATAT
Statistics
Matches: 133, Mismatches: 33, Indels: 7
0.77 0.19 0.04
Matches are distributed among these distances:
67 22 0.17
68 110 0.83
69 1 0.01
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.29
Consensus pattern (68 bp):
TATAACTGATCAATATGGTAGCAATTAACATGCTTATAATAAATCGATACAGTAGCAATTAGCAT
GCC
Found at i:42119827 original size:68 final size:68
Alignment explanation
Indices: 42119662--42119887 Score: 215
Period size: 68 Copynumber: 3.3 Consensus size: 68
42119652 GATCAATATG
* * * ** * * * * * * *
42119662 GTAGCAATAAACATGCTTGTGACAAATTGATACAGTAGCAATTAGCATGCCTATAAC-TGATAAA
1 GTAGCAATTAACATGCTTATAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAG-TCAA
*
42119726 TACG
65 TACA
* * *
42119730 GTAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTGACAAGTCAAT
1 GTAGCAATTAACATGCTTATAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAAT
42119795 ATC-
66 A-CA
* * * *
42119798 GTAGCAATTAACATGC-TATTAACATATCAATACAGTGGTAATAAACATGCTTGTGACAAGTCGA
1 GTAGCAATTAACATGCTTA-TAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAA
42119862 TACA
65 TACA
*
42119866 ATAGCAATTAACATGCTTATAA
1 GTAGCAATTAACATGCTTATAA
42119888 TAGACCATTA
Statistics
Matches: 130, Mismatches: 23, Indels: 10
0.80 0.14 0.06
Matches are distributed among these distances:
67 3 0.02
68 123 0.95
69 4 0.03
ACGTcount: A:0.40, C:0.16, G:0.15, T:0.28
Consensus pattern (68 bp):
GTAGCAATTAACATGCTTATAACAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAAT
ACA
Found at i:42119847 original size:102 final size:102
Alignment explanation
Indices: 42119639--42119883 Score: 253
Period size: 102 Copynumber: 2.4 Consensus size: 102
42119629 TATCAACTAT
* ** **
42119639 CATGCTTATAATAGATCAATATGGTAGCAATAAACATGCTTGTGACAAATTGATACAGTAGCAAT
1 CATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAATCAATACAGTAGCAAT
* * * *
42119704 TAGCATGCCTATAACTGATAAATACGGTAGCAATTAT
66 TAACATGCCTATAACTGATAAATACAGTAGCAATAAA
* *
42119741 CATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTGACAAGTCAATATC-GTAGCAA
1 CATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAATCAATA-CAGTAGCAA
* * *
42119805 TTAACATG-CTATTAACAT-ATCAATACAGTGGTAATAAA
65 TTAACATGCCTA-TAAC-TGATAAATACAGTAGCAATAAA
* * * * * * *
42119843 CATGCTTGTGACAAGTCGATACAATAGCAATTAACATGCTT
1 CATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTT
42119884 ATAATAGACC
Statistics
Matches: 118, Mismatches: 22, Indels: 6
0.81 0.15 0.04
Matches are distributed among these distances:
101 3 0.03
102 113 0.96
103 2 0.02
ACGTcount: A:0.40, C:0.16, G:0.16, T:0.29
Consensus pattern (102 bp):
CATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAATCAATACAGTAGCAAT
TAACATGCCTATAACTGATAAATACAGTAGCAATAAA
Found at i:42119900 original size:68 final size:68
Alignment explanation
Indices: 42119731--42119917 Score: 216
Period size: 68 Copynumber: 2.8 Consensus size: 68
42119721 ATAAATACGG
* *
42119731 TAGCAATTATCATGCTTATAATAAATCAATGCAGTAGCAATAAACATGCTTGTGACAAGTCAATA
1 TAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATA
*
42119796 TCG
66 TCA
* * * * *
42119799 TAGCAATTAACATGC-TATTAACATATCAATACAGTGGTAATAAACATGCTTGTGACAAGTCGAT
1 TAGCAATTAACATGCTTA-TAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAAT
42119863 A-CAA
65 ATC-A
* * * * * *
42119867 TAGCAATTAACATGCTTATAATAGACCATTACAGTATCATTAAACTTGCTT
1 TAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTT
42119918 CTATCATGTA
Statistics
Matches: 99, Mismatches: 17, Indels: 6
0.81 0.14 0.05
Matches are distributed among these distances:
67 3 0.03
68 94 0.95
69 2 0.02
ACGTcount: A:0.40, C:0.17, G:0.13, T:0.30
Consensus pattern (68 bp):
TAGCAATTAACATGCTTATAATAAATCAATACAGTAGCAATAAACATGCTTGTGACAAGTCAATA
TCA
Found at i:42120366 original size:13 final size:13
Alignment explanation
Indices: 42120348--42120372 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
42120338 GGCACATGGT
42120348 CGTGTGGTCCACC
1 CGTGTGGTCCACC
42120361 CGTGTGGTCCAC
1 CGTGTGGTCCAC
42120373 ACGCCCATGT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.08, C:0.36, G:0.32, T:0.24
Consensus pattern (13 bp):
CGTGTGGTCCACC
Found at i:42122014 original size:26 final size:26
Alignment explanation
Indices: 42121985--42122037 Score: 65
Period size: 26 Copynumber: 2.1 Consensus size: 26
42121975 TATTATAGGC
*
42121985 TTTTT-ATATATTT-TAATTGTATATT
1 TTTTTCATAAATTTATAATT-TATATT
*
42122010 TTTTTCATAAATTTATAGTTTATATT
1 TTTTTCATAAATTTATAATTTATATT
42122036 TT
1 TT
42122038 ATATATGTTT
Statistics
Matches: 24, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
25 5 0.21
26 15 0.62
27 4 0.17
ACGTcount: A:0.28, C:0.02, G:0.04, T:0.66
Consensus pattern (26 bp):
TTTTTCATAAATTTATAATTTATATT
Found at i:42122446 original size:17 final size:17
Alignment explanation
Indices: 42122424--42122456 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
42122414 ATTATAAGTT
42122424 AATT-AATATAATATTAA
1 AATTAAATA-AATATTAA
42122441 AATTAAATAAATATTA
1 AATTAAATAAATATTA
42122457 TTTTATAAAA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
17 11 0.73
18 4 0.27
ACGTcount: A:0.61, C:0.00, G:0.00, T:0.39
Consensus pattern (17 bp):
AATTAAATAAATATTAA
Found at i:42122906 original size:19 final size:21
Alignment explanation
Indices: 42122825--42122900 Score: 120
Period size: 21 Copynumber: 3.7 Consensus size: 21
42122815 ATCTTCAAGG
*
42122825 ATATGTAATCTTAGATATG--
1 ATATGCAATCTTAGATATGAT
*
42122844 ATATGCAATCTTAAATATGAT
1 ATATGCAATCTTAGATATGAT
42122865 ATATGCAATCTTAGATATGAT
1 ATATGCAATCTTAGATATGAT
42122886 ATATGCAATCTTAGA
1 ATATGCAATCTTAGA
42122901 AGATATGATT
Statistics
Matches: 52, Mismatches: 3, Indels: 2
0.91 0.05 0.04
Matches are distributed among these distances:
19 17 0.33
21 35 0.67
ACGTcount: A:0.39, C:0.09, G:0.13, T:0.38
Consensus pattern (21 bp):
ATATGCAATCTTAGATATGAT
Found at i:42122922 original size:23 final size:24
Alignment explanation
Indices: 42122837--42122923 Score: 93
Period size: 21 Copynumber: 4.0 Consensus size: 24
42122827 ATGTAATCTT
42122837 AGATATG--ATATGCAATCTT--A
1 AGATATGATATATGCAATCTTAGA
42122857 A-ATATGATATATGCAATCTT---
1 AGATATGATATATGCAATCTTAGA
42122877 AGATATGATATATGCAATCTTAGA
1 AGATATGATATATGCAATCTTAGA
* *
42122901 AGATATGAT-TTTGTAATCTTAGA
1 AGATATGATATATGCAATCTTAGA
42122924 GATTTAATTT
Statistics
Matches: 59, Mismatches: 2, Indels: 9
0.84 0.03 0.13
Matches are distributed among these distances:
19 5 0.08
20 2 0.03
21 31 0.53
23 12 0.20
24 9 0.15
ACGTcount: A:0.39, C:0.08, G:0.15, T:0.38
Consensus pattern (24 bp):
AGATATGATATATGCAATCTTAGA
Found at i:42123415 original size:17 final size:17
Alignment explanation
Indices: 42123393--42123427 Score: 52
Period size: 17 Copynumber: 2.1 Consensus size: 17
42123383 TTTATATACA
* *
42123393 TATATATATTTACATTT
1 TATATACATATACATTT
42123410 TATATACATATACATTT
1 TATATACATATACATTT
42123427 T
1 T
42123428 TTATTTCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.37, C:0.09, G:0.00, T:0.54
Consensus pattern (17 bp):
TATATACATATACATTT
Found at i:42126598 original size:25 final size:25
Alignment explanation
Indices: 42126553--42126609 Score: 71
Period size: 25 Copynumber: 2.3 Consensus size: 25
42126543 AAGTAAAGGG
**
42126553 AAGCTCATACGAGCTGTATATCGGA
1 AAGCTCATACGAGCTAAATATCGGA
*
42126578 AAGCTCATACGAG-TCAAATATCGGG
1 AAGCTCATACGAGCT-AAATATCGGA
42126603 AAGCTCA
1 AAGCTCA
42126610 AGAGAGCCAA
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
24 1 0.04
25 27 0.96
ACGTcount: A:0.35, C:0.21, G:0.23, T:0.21
Consensus pattern (25 bp):
AAGCTCATACGAGCTAAATATCGGA
Found at i:42126620 original size:25 final size:25
Alignment explanation
Indices: 42126570--42126641 Score: 74
Period size: 25 Copynumber: 2.9 Consensus size: 25
42126560 TACGAGCTGT
* * *
42126570 ATATCGGAAAGCTCATA-CGAGTCAA
1 ATATCGGGAAGCTCA-AGAGAGCCAA
42126595 ATATCGGGAAGCTCAAGAGAGCCAA
1 ATATCGGGAAGCTCAAGAGAGCCAA
* * *
42126620 ATAACAGGAAGCTCATGAGAGC
1 ATATCGGGAAGCTCAAGAGAGC
42126642 TATGGTGTGT
Statistics
Matches: 40, Mismatches: 6, Indels: 2
0.83 0.12 0.04
Matches are distributed among these distances:
24 1 0.03
25 39 0.98
ACGTcount: A:0.40, C:0.19, G:0.25, T:0.15
Consensus pattern (25 bp):
ATATCGGGAAGCTCAAGAGAGCCAA
Found at i:42136345 original size:3 final size:3
Alignment explanation
Indices: 42136337--42136363 Score: 54
Period size: 3 Copynumber: 9.0 Consensus size: 3
42136327 TGAGTTATTA
42136337 CAT CAT CAT CAT CAT CAT CAT CAT CAT
1 CAT CAT CAT CAT CAT CAT CAT CAT CAT
42136364 TTAAACAACT
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 24 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
CAT
Found at i:42136555 original size:17 final size:18
Alignment explanation
Indices: 42136519--42136556 Score: 51
Period size: 18 Copynumber: 2.2 Consensus size: 18
42136509 ATAAAATTTC
*
42136519 AAATATTTTTAAACTAAA
1 AAATATTCTTAAACTAAA
*
42136537 AAATATTCTTGAA-TAAA
1 AAATATTCTTAAACTAAA
42136554 AAA
1 AAA
42136557 GGATTAAATT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
17 7 0.39
18 11 0.61
ACGTcount: A:0.58, C:0.05, G:0.03, T:0.34
Consensus pattern (18 bp):
AAATATTCTTAAACTAAA
Found at i:42142644 original size:20 final size:22
Alignment explanation
Indices: 42142619--42142675 Score: 79
Period size: 20 Copynumber: 2.8 Consensus size: 22
42142609 AATTTTTTAT
42142619 TAAATTT-TAT-TTCAAATATA
1 TAAATTTATATATTCAAATATA
42142639 TAAATTTATATATTC-AA-ATA
1 TAAATTTATATATTCAAATATA
42142659 TAAA-TTATATATTCAAA
1 TAAATTTATATATTCAAA
42142676 CTAAATTTTA
Statistics
Matches: 34, Mismatches: 0, Indels: 6
0.85 0.00 0.15
Matches are distributed among these distances:
19 10 0.29
20 16 0.47
21 5 0.15
22 3 0.09
ACGTcount: A:0.49, C:0.05, G:0.00, T:0.46
Consensus pattern (22 bp):
TAAATTTATATATTCAAATATA
Found at i:42144955 original size:13 final size:12
Alignment explanation
Indices: 42144933--42144962 Score: 51
Period size: 13 Copynumber: 2.4 Consensus size: 12
42144923 ATGTTAAGTT
42144933 ATTTGTGTGAAA
1 ATTTGTGTGAAA
42144945 ATTTCGTGTGAAA
1 ATTT-GTGTGAAA
42144958 ATTTG
1 ATTTG
42144963 ATCGTTTGAA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
12 5 0.29
13 12 0.71
ACGTcount: A:0.30, C:0.03, G:0.23, T:0.43
Consensus pattern (12 bp):
ATTTGTGTGAAA
Found at i:42146279 original size:37 final size:37
Alignment explanation
Indices: 42146238--42146357 Score: 102
Period size: 37 Copynumber: 3.2 Consensus size: 37
42146228 GAATATAAAT
*
42146238 ATGTATGCATATAATCAAGTTATTGAGTTGGGAATTA
1 ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
* * * * *
42146275 ATGTATGAATTTTAT-AA-TTATAGGGAGATT-CGAACATA
1 ATGTATGCATTTAATCAAGTTAT--TGAG-TTGGGAA-TTA
*
42146313 TATGTATGCATTTAATCAAGTTATTGAGTTGGAAATTA
1 -ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
*
42146351 AAGTATG
1 ATGTATG
42146358 TTTCTTATAT
Statistics
Matches: 62, Mismatches: 13, Indels: 16
0.68 0.14 0.18
Matches are distributed among these distances:
35 4 0.06
36 2 0.03
37 24 0.39
38 8 0.13
39 18 0.29
40 2 0.03
41 4 0.06
ACGTcount: A:0.37, C:0.05, G:0.20, T:0.38
Consensus pattern (37 bp):
ATGTATGCATTTAATCAAGTTATTGAGTTGGGAATTA
Found at i:42146383 original size:76 final size:77
Alignment explanation
Indices: 42146222--42146384 Score: 206
Period size: 76 Copynumber: 2.1 Consensus size: 77
42146212 TAAAGGTATG
* * *
42146222 AGGTTCGAATATAAATATGTATGCATATAATCAAGTTATTGAGTTGGGAATTAATGTATGAATTT
1 AGGTTCGAACAT-AATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATTT
**
42146287 TATAATTATAGGG
65 TATAATTATAGAA
* * *
42146300 AGATTCGAACAT-ATATGTATGCATTTAATCAAGTTATTGAGTTGGAAATTAAAGTATG-TTTCT
1 AGGTTCGAACATAATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATT-T
42146363 TAT-ATTCATAGAA
65 TATAATT-ATAGAA
42146376 AGGTTCGAA
1 AGGTTCGAA
42146385 TATAGAGATT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
75 5 0.07
76 59 0.80
78 10 0.14
ACGTcount: A:0.37, C:0.06, G:0.19, T:0.38
Consensus pattern (77 bp):
AGGTTCGAACATAATATGTATGCATATAATCAAGTTATTGAGTTGGAAATTAAAGTATGAATTTT
ATAATTATAGAA
Found at i:42146624 original size:41 final size:41
Alignment explanation
Indices: 42146579--42146678 Score: 173
Period size: 41 Copynumber: 2.4 Consensus size: 41
42146569 GGCTTTGTGC
*
42146579 CTAGCAGGCTTAACGCTGGTGAAAAATTTCGGACTATACGT
1 CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATACGT
*
42146620 CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATATGT
1 CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATACGT
*
42146661 CTAGCAGGCTTAATGCCG
1 CTAGCAGGCTTAACGCCG
42146679 ATGTTCTGAA
Statistics
Matches: 56, Mismatches: 3, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
41 56 1.00
ACGTcount: A:0.28, C:0.21, G:0.25, T:0.26
Consensus pattern (41 bp):
CTAGCAGGCTTAACGCCGGTGAAAAATTTCGGACTATACGT
Found at i:42151371 original size:50 final size:50
Alignment explanation
Indices: 42151294--42151634 Score: 352
Period size: 50 Copynumber: 6.9 Consensus size: 50
42151284 CATTTGGGTA
* *
42151294 AAGAGGTCCCATGTAAGACCATGTCTGGGACACGGCATTGGCACCAAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* * * *
42151344 GAGAGGTCTCATGTAAGACCATTTCTGGGACATGGCATTGGCACTGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
* ** * *
42151394 GAGAGGTCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** * * * *
42151444 AAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAAGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCGAGAT
* * *
42151495 AACA--TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
** * * * *
42151543 AAGAACTCCCATGTAAGACCATATCTGGGATATGGCATTGGCAGTACAAGA-
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA--CCGAGAT
* *
42151594 AACA--TCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCA
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCA
42151635 TGTTATTATC
Statistics
Matches: 242, Mismatches: 42, Indels: 15
0.81 0.14 0.05
Matches are distributed among these distances:
47 3 0.01
48 3 0.01
49 68 0.28
50 156 0.64
51 6 0.02
52 6 0.02
ACGTcount: A:0.30, C:0.22, G:0.27, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATTGGCACCGAGAT
Found at i:42151538 original size:99 final size:99
Alignment explanation
Indices: 42151300--42151627 Score: 485
Period size: 99 Copynumber: 3.3 Consensus size: 99
42151290 GGTAAAGAGG
* * * * * ** *
42151300 TCCCATGTAAGACCATGTCTGGGACACGGCATTGGCACCAAGATGAGAGGTCTCATGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAACTCCCATGTAAGACCA
* * * * * * **
42151365 TTTCTGGGACATGGCATTGGCACTGAGATGAGAGG
66 TATCTGGGATATGGCATTGGCAGT-ACAAGAAACA
**
42151400 TCCCCCGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAACTCCCATGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAACTCCCATGTAAGACCA
42151465 TATCTGGGATATGGCATTGGCAGTACAAGAAACA
66 TATCTGGGATATGGCATTGGCAGTACAAGAAACA
42151499 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAACTCCCATGTAAGACCA
1 TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAACTCCCATGTAAGACCA
42151564 TATCTGGGATATGGCATTGGCAGTACAAGAAACA
66 TATCTGGGATATGGCATTGGCAGTACAAGAAACA
42151598 TCCCATGTAAGACCATGTCTGGGACATGGC
1 TCCCATGTAAGACCATGTCTGGGACATGGC
42151628 TTTGGCATGT
Statistics
Matches: 208, Mismatches: 20, Indels: 1
0.91 0.09 0.00
Matches are distributed among these distances:
99 132 0.63
100 76 0.37
ACGTcount: A:0.30, C:0.23, G:0.26, T:0.21
Consensus pattern (99 bp):
TCCCATGTAAGACCATGTCTGGGACATGGCATGGGCACCGATATAAGAACTCCCATGTAAGACCA
TATCTGGGATATGGCATTGGCAGTACAAGAAACA
Found at i:42152148 original size:23 final size:23
Alignment explanation
Indices: 42152114--42152739 Score: 291
Period size: 23 Copynumber: 26.6 Consensus size: 23
42152104 TTCACACCAA
*
42152114 AAATTGGACAGCATATATACAAC
1 AAATTGGGCAGCATATATACAAC
* *
42152137 AATTTGGGCAGCATATATACATC
1 AAATTGGGCAGCATATATACAAC
* * *
42152160 AAATTGAGCAGCAT-TTTAGCATAA
1 AAATTGGGCAGCATATATA-CA-AC
*
42152184 AAATTGGACAGCATATATACAAC
1 AAATTGGGCAGCATATATACAAC
* * *
42152207 AATTTGGGCAGCCTATATATATACC
1 AAATTGGGCAG-C-ATATATACAAC
* * * * *
42152232 AAATTGAGCAGTATTTTTACATC
1 AAATTGGGCAGCATATATACAAC
** *
42152255 AAAATTGGATA-CATAGGTA-ATCTACCC
1 -AAATTGGGCAGCATA--TATA-C-A-AC
*** * * * * *
42152282 TGTTTGGACAGCCTTTTTACATC
1 AAATTGGGCAGCATATATACAAC
* *
42152305 AATTTGGACAGCATTCATATAC--C
1 AAATTGGGCAGCA-T-ATATACAAC
* * * * *
42152328 AAACTAGACAGCAT-TTTCACACCAA
1 AAATTGGGCAGCATATAT-ACA--AC
*
42152353 AAATTGGACAGCATATATACAAC
1 AAATTGGGCAGCATATATACAAC
* *
42152376 AATTTGGGCAGCATATATACATC
1 AAATTGGGCAGCATATATACAAC
* * *
42152399 AAATTGAGCAGCAT-TTTAGCATAA
1 AAATTGGGCAGCATATATA-CA-AC
*
42152423 AAATTGGACAGCATATATACAAC
1 AAATTGGGCAGCATATATACAAC
* *
42152446 AATTTGGGCAGCATAAATACAAC
1 AAATTGGGCAGCATATATACAAC
* * *
42152469 AAATTGGGTAGCATTTA-AGCATAA
1 AAATTGGGCAGCATATATA-CA-AC
* *
42152493 AAATTGGACAGCATAAATACAAC
1 AAATTGGGCAGCATATATACAAC
** * *
42152516 AAATTGGATAGCAT-TTTAGCATAA
1 AAATTGGGCAGCATATATA-CA-AC
* * * *
42152540 AAATTTGACAGCATATATGCACC
1 AAATTGGGCAGCATATATACAAC
* *
42152563 AATTTGGGCAGCATAAATACAAC
1 AAATTGGGCAGCATATATACAAC
* * *
42152586 AAATTGGACAGCAT-TTTAGCATAA
1 AAATTGGGCAGCATATATA-CA-AC
* * * *
42152610 AAATTTGACAGCATATGTGCAAC
1 AAATTGGGCAGCATATATACAAC
* * *
42152633 AATTTGGGCAGCATATATATACC
1 AAATTGGGCAGCATATATACAAC
* * * *
42152656 AAATTGAGCAGCATTTTTACATC
1 AAATTGGGCAGCATATATACAAC
*
42152679 AAAATTGGACAGCATATATACAAC
1 -AAATTGGGCAGCATATATACAAC
* *
42152703 AATTTGGGCAGCATAAATACAAC
1 AAATTGGGCAGCATATATACAAC
*
42152726 AAATTGGACAGCAT
1 AAATTGGGCAGCAT
42152740 TTAAGCATAA
Statistics
Matches: 444, Mismatches: 125, Indels: 68
0.70 0.20 0.11
Matches are distributed among these distances:
20 2 0.00
21 2 0.00
22 12 0.03
23 259 0.58
24 104 0.23
25 52 0.12
26 10 0.02
27 3 0.01
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (23 bp):
AAATTGGGCAGCATATATACAAC
Found at i:42152204 original size:70 final size:68
Alignment explanation
Indices: 42152097--42152754 Score: 434
Period size: 70 Copynumber: 9.3 Consensus size: 68
42152087 CCAAACTAGA
* *
42152097 CAGCATTTTCACACCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACATCAA
1 CAGCATTTT-ACA-TAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
42152162 ATTGAG
64 ATTG-G
* *
42152168 CAGCATTTTAGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCCTATATATATACCA
1 CAGCATTTTA-CATAAAAATTGGACAGCATATATACAACAATTTGGGCAG-C-ATATATACAACA
42152233 AATTGAG
63 AATTG-G
* * * * ** * * * *
42152240 CAGTATTTTTACATCAAAATTGGATA-CATAGGTA-ATCTACCCTGTTTGGACAGCCTTTTTACA
1 CAGCA-TTTTACATAAAAATTGGACAGCATA--TATA-C-A-ACAATTTGGGCAGCATATATACA
* *
42152303 TCAATTTGG
60 ACAAATTGG
* * * * * * * * *
42152312 ACAGCA-TTCATATACCAAACTAGACAGCAT-TTTCACACCAAAAATTGGACAGCATATATACAA
1 -CAGCATTTTACATA-AAAATTGGACAGCATATAT-ACA--ACAATTTGGGCAGCATATATACAA
*
42152375 CAATTTGGG
61 CAAATT-GG
* * * * * *
42152384 CAGCATATATACAT-CAAATT-GAGCAGCAT-TTTAGCATAAAAATTGGACAGCATATATACAAC
1 CAGCAT-TTTACATAAAAATTGGA-CAGCATATATA-CA-ACAATTTGGGCAGCATATATACAAC
*
42152446 AATTTGGG
62 AAATT-GG
** * ** * * * * *
42152454 CAGCATAAATACA-ACAAATTGGGTAGCATTTA-AGCATAAAAATTGGACAGCATAAATACAACA
1 CAGCAT-TTTACATAAAAATTGGACAGCATATATA-CA-ACAATTTGGGCAGCATATATACAACA
42152517 AATTGG
63 AATTGG
* * * * *
42152523 ATAGCATTTTAGCATAAAAATTTGACAGCATATATGCACCAATTTGGGCAGCATAAATACAACAA
1 -CAGCATTTTA-CATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
42152588 ATTGG
64 ATTGG
* * * * *
42152593 ACAGCATTTTAGCATAAAAATTTGACAGCATATGTGCAACAATTTGGGCAGCATATATATACCAA
1 -CAGCATTTTA-CATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAA
42152658 ATTGAG
64 ATTG-G
* *
42152664 CAGCATTTTTACATCAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAA
1 CAGCA-TTTTACATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAAA
42152729 TTGG
65 TTGG
*
42152733 ACAGCATTTAAGCATAAAAATT
1 -CAGCATTTTA-CATAAAAATT
42152755 ACATGAACAT
Statistics
Matches: 483, Mismatches: 73, Indels: 63
0.78 0.12 0.10
Matches are distributed among these distances:
69 9 0.02
70 298 0.62
71 89 0.18
72 46 0.10
73 30 0.06
74 2 0.00
75 9 0.02
ACGTcount: A:0.41, C:0.17, G:0.15, T:0.27
Consensus pattern (68 bp):
CAGCATTTTACATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACAACAAAT
TGG
Found at i:42152445 original size:239 final size:239
Alignment explanation
Indices: 42152026--42152457 Score: 864
Period size: 239 Copynumber: 1.8 Consensus size: 239
42152016 ACATATTACA
42152026 ACATAGGTAATCTACCCTGTTTGGACAGCCTTTTTACATCAATTTGGACAGCATTCATATACCAA
1 ACATAGGTAATCTACCCTGTTTGGACAGCCTTTTTACATCAATTTGGACAGCATTCATATACCAA
42152091 ACTAGACAGCATTTTCACACCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATA
66 ACTAGACAGCATTTTCACACCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATA
42152156 CATCAAATTGAGCAGCATTTTAGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCCT
131 CATCAAATTGAGCAGCATTTTAGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCCT
42152221 ATATATATACCAAATTGAGCAGTATTTTTACATCAAAATTGGAT
196 ATATATATACCAAATTGAGCAGTATTTTTACATCAAAATTGGAT
42152265 ACATAGGTAATCTACCCTGTTTGGACAGCCTTTTTACATCAATTTGGACAGCATTCATATACCAA
1 ACATAGGTAATCTACCCTGTTTGGACAGCCTTTTTACATCAATTTGGACAGCATTCATATACCAA
42152330 ACTAGACAGCATTTTCACACCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATA
66 ACTAGACAGCATTTTCACACCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATA
42152395 CATCAAATTGAGCAGCATTTTAGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGC
131 CATCAAATTGAGCAGCATTTTAGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGC
42152458 ATAAATACAA
Statistics
Matches: 193, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
239 193 1.00
ACGTcount: A:0.38, C:0.19, G:0.15, T:0.28
Consensus pattern (239 bp):
ACATAGGTAATCTACCCTGTTTGGACAGCCTTTTTACATCAATTTGGACAGCATTCATATACCAA
ACTAGACAGCATTTTCACACCAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATA
CATCAAATTGAGCAGCATTTTAGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCCT
ATATATATACCAAATTGAGCAGTATTTTTACATCAAAATTGGAT
Found at i:42152496 original size:24 final size:24
Alignment explanation
Indices: 42152469--42152553 Score: 75
Period size: 24 Copynumber: 3.6 Consensus size: 24
42152459 TAAATACAAC
*
42152469 AAATTGGGTAGCATTTAAGCATAA
1 AAATTGGATAGCATTTAAGCATAA
* * * *
42152493 AAATTGGACAGCA-TAAATACA-AC
1 AAATTGGATAGCATTTAA-GCATAA
*
42152516 AAATTGGATAGCATTTTAGCATAA
1 AAATTGGATAGCATTTAAGCATAA
* *
42152540 AAATTTGACAGCAT
1 AAATTGGATAGCAT
42152554 ATATGCACCA
Statistics
Matches: 46, Mismatches: 12, Indels: 6
0.72 0.19 0.09
Matches are distributed among these distances:
23 18 0.39
24 28 0.61
ACGTcount: A:0.45, C:0.12, G:0.16, T:0.27
Consensus pattern (24 bp):
AAATTGGATAGCATTTAAGCATAA
Found at i:42152568 original size:187 final size:187
Alignment explanation
Indices: 42152351--42152709 Score: 533
Period size: 187 Copynumber: 1.9 Consensus size: 187
42152341 TTTTCACACC
* *
42152351 AAAAATTGGACAGCATATATACAACAATTTGGGCAGCATATATACATCAAATT-GAGCAGCATTT
1 AAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGA-CAGCATTT
* *
42152415 TAGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGGTAG
65 TAGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGAGCAG
42152480 CA-TTTAAGCATAAAAATTGGACAGCATAAATACAACAAATTGGATAGCATTTTAGCAT
130 CATTTTAA-CATAAAAATTGGACAGCATAAATACAACAAATTGGATAGCATTTTAGCAT
* * *
42152538 AAAAATTTGACAGCATATATGCACCAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTT
1 AAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTT
* * * * * *
42152603 AGCATAAAAATTTGACAGCATATGTGCAACAATTTGGGCAGCATATATATACCAAATTGAGCAGC
66 AGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGAGCAGC
* * * *
42152668 ATTTTTACATCAAAATTGGACAGCATATATACAACAATTTGG
131 ATTTTAACATAAAAATTGGACAGCATAAATACAACAAATTGG
42152710 GCAGCATAAA
Statistics
Matches: 153, Mismatches: 17, Indels: 4
0.88 0.10 0.02
Matches are distributed among these distances:
187 147 0.96
188 6 0.04
ACGTcount: A:0.42, C:0.15, G:0.16, T:0.26
Consensus pattern (187 bp):
AAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGGACAGCATTTT
AGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAACAAATTGAGCAGC
ATTTTAACATAAAAATTGGACAGCATAAATACAACAAATTGGATAGCATTTTAGCAT
Found at i:42152576 original size:47 final size:47
Alignment explanation
Indices: 42152449--42152554 Score: 176
Period size: 47 Copynumber: 2.3 Consensus size: 47
42152439 ATACAACAAT
*
42152449 TTGGGCAGCATAAATACAACAAATTGGGTAGCATTTAAGCATAAAAA
1 TTGGACAGCATAAATACAACAAATTGGGTAGCATTTAAGCATAAAAA
* *
42152496 TTGGACAGCATAAATACAACAAATTGGATAGCATTTTAGCATAAAAA
1 TTGGACAGCATAAATACAACAAATTGGGTAGCATTTAAGCATAAAAA
*
42152543 TTTGACAGCATA
1 TTGGACAGCATA
42152555 TATGCACCAA
Statistics
Matches: 55, Mismatches: 4, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
47 55 1.00
ACGTcount: A:0.44, C:0.13, G:0.17, T:0.25
Consensus pattern (47 bp):
TTGGACAGCATAAATACAACAAATTGGGTAGCATTTAAGCATAAAAA
Found at i:42152634 original size:47 final size:46
Alignment explanation
Indices: 42152353--42152754 Score: 175
Period size: 47 Copynumber: 8.6 Consensus size: 46
42152343 TTCACACCAA
* * *
42152353 AAATTGGACAGCATATATAC--AACAATTTGGGCAGCATATATACATC
1 AAATTGGACAGCAT-TATACATAAAAATTT-GACAGCATATATACAAC
* *
42152399 AAATT-GAGCAGCATTTTAGCATAAAAATTGGACAGCATATATACAAC
1 AAATTGGA-CAGCATTATA-CATAAAAATTTGACAGCATATATACAAC
* * * * * ** * *
42152446 AATTTGGGCAGCATAAATACA-ACAAATTGGGTAGCATTTA-AGCATAA
1 AAATTGGACAGCAT-TATACATAAAAATTTGACAGCATATATA-CA-AC
* * * * * *
42152493 AAATTGGACAGCATAAATACA-ACAAATTGGATAGCAT-TTTAGCATAA
1 AAATTGGACAGCAT-TATACATAAAAATTTGACAGCATATATA-CA-AC
* * ** * *
42152540 AAATTTGACAGCATATATGC--ACCAATTTGGGCAGCATAAATACAAC
1 AAATTGGACAGCAT-TATACATAAAAATTT-GACAGCATATATACAAC
* * *
42152586 AAATTGGACAGCATTTTAGCATAAAAATTTGACAGCATATGTGCAAC
1 AAATTGGACAGCATTATA-CATAAAAATTTGACAGCATATATACAAC
* * * * * * *
42152633 AATTTGGGCAGCA-TATATATACCAAA-TTGAGCAGCATTTTTACATC
1 AAATTGGACAGCATTATACATA-AAAATTTGA-CAGCATATATACAAC
* * *
42152679 AAAATTGGACAGCATATATAC--AACAATTTGGGCAGCATAAATACAAC
1 -AAATTGGACAGCAT-TATACATAAAAATTT-GACAGCATATATACAAC
42152726 AAATTGGACAGCATT-TAAGCATAAAAATT
1 AAATTGGACAGCATTAT-A-CATAAAAATT
42152755 ACATGAACAT
Statistics
Matches: 274, Mismatches: 57, Indels: 48
0.72 0.15 0.13
Matches are distributed among these distances:
44 1 0.00
45 17 0.06
46 85 0.31
47 143 0.52
48 24 0.09
49 4 0.01
ACGTcount: A:0.43, C:0.15, G:0.16, T:0.26
Consensus pattern (46 bp):
AAATTGGACAGCATTATACATAAAAATTTGACAGCATATATACAAC
Found at i:42152646 original size:117 final size:117
Alignment explanation
Indices: 42152353--42152646 Score: 385
Period size: 117 Copynumber: 2.5 Consensus size: 117
42152343 TTCACACCAA
* * * * * * *
42152353 AAATTGGACAGCATATATA-CA-ACAATTTGGGCAGCATATATACATCAAATTGAGCAGCATTTT
1 AAATTGGACAGCATTTA-AGCATAAAAATTGGACAGCATAAATACAACAAATTGGGCAGCATTTT
42152416 AGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAAC
65 AGCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAAC
** **
42152469 AAATTGGGTAGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAATTGGATAGCATTTTA
1 AAATTGGACAGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAATTGGGCAGCATTTTA
* * *
42152534 GCATAAAAATTTGACAGCATATATGCACCAATTTGGGCAGCATAAATACAAC
66 GCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAAC
* * ** * *
42152586 AAATTGGACAGCATTTTAGCATAAAAATTTGACAGCATATGTGCAACAATTTGGGCAGCAT
1 AAATTGGACAGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAATTGGGCAGCAT
42152647 ATATATACCA
Statistics
Matches: 152, Mismatches: 24, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
115 1 0.01
116 16 0.11
117 135 0.89
ACGTcount: A:0.42, C:0.15, G:0.17, T:0.26
Consensus pattern (117 bp):
AAATTGGACAGCATTTAAGCATAAAAATTGGACAGCATAAATACAACAAATTGGGCAGCATTTTA
GCATAAAAATTGGACAGCATATATACAACAATTTGGGCAGCATAAATACAAC
Found at i:42153483 original size:28 final size:28
Alignment explanation
Indices: 42153451--42153548 Score: 142
Period size: 28 Copynumber: 3.5 Consensus size: 28
42153441 TTTAATAAGT
** * *
42153451 TCGCACACTTAGTGCTCAATAATCAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
42153479 TCGCACACTTAGTGCTTTACAATTAAAC
1 TCGCACACTTAGTGCTTTACAATTAAAC
* *
42153507 TCACACACTTAGTGCTTTACAATTAAAT
1 TCGCACACTTAGTGCTTTACAATTAAAC
42153535 TCGCACACTTAGTG
1 TCGCACACTTAGTG
42153549 TCGAAAGTCA
Statistics
Matches: 63, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
28 63 1.00
ACGTcount: A:0.33, C:0.26, G:0.11, T:0.31
Consensus pattern (28 bp):
TCGCACACTTAGTGCTTTACAATTAAAC
Found at i:42169871 original size:21 final size:23
Alignment explanation
Indices: 42169845--42169887 Score: 72
Period size: 21 Copynumber: 2.0 Consensus size: 23
42169835 ATAGATTTTG
42169845 TTTTATAAA-TTTTAAA-TATTA
1 TTTTATAAAGTTTTAAAGTATTA
42169866 TTTTATAAAGTTTTAAAGTATT
1 TTTTATAAAGTTTTAAAGTATT
42169888 TTGTAAATAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
21 9 0.45
22 7 0.35
23 4 0.20
ACGTcount: A:0.40, C:0.00, G:0.05, T:0.56
Consensus pattern (23 bp):
TTTTATAAAGTTTTAAAGTATTA
Found at i:42169889 original size:20 final size:21
Alignment explanation
Indices: 42169845--42169895 Score: 61
Period size: 20 Copynumber: 2.5 Consensus size: 21
42169835 ATAGATTTTG
*
42169845 TTTTATAAATTTTAAATATTA
1 TTTTATAAATTTTAAATAGTA
42169866 TTTTATAAAGTTTT-AA-AGTA
1 TTTTATAAA-TTTTAAATAGTA
*
42169886 TTTTGTAAAT
1 TTTTATAAAT
42169896 ATTTCTAAAA
Statistics
Matches: 27, Mismatches: 2, Indels: 4
0.82 0.06 0.12
Matches are distributed among these distances:
19 1 0.04
20 11 0.41
21 11 0.41
22 4 0.15
ACGTcount: A:0.39, C:0.00, G:0.06, T:0.55
Consensus pattern (21 bp):
TTTTATAAATTTTAAATAGTA
Found at i:42173878 original size:41 final size:41
Alignment explanation
Indices: 42173818--42173968 Score: 257
Period size: 41 Copynumber: 3.7 Consensus size: 41
42173808 AGACTATACG
42173818 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAA
*
42173859 CCTAGCAGGCTAAGCGCCGGTGATCTGAATCAGGTTATAAA
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAA
* *
42173900 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGCTATAAG
1 CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAA
*
42173941 CCTAGCAAGCTAAGTGCCGGTGAATCTG
1 CCTAGCAGGCTAAGTGCCGGTG-ATCTG
42173969 TTAAATTAAG
Statistics
Matches: 104, Mismatches: 5, Indels: 1
0.95 0.05 0.01
Matches are distributed among these distances:
41 99 0.95
42 5 0.05
ACGTcount: A:0.28, C:0.22, G:0.28, T:0.23
Consensus pattern (41 bp):
CCTAGCAGGCTAAGTGCCGGTGATCTGAATCAGGTTATAAA
Found at i:42175383 original size:45 final size:45
Alignment explanation
Indices: 42175332--42175423 Score: 166
Period size: 45 Copynumber: 2.0 Consensus size: 45
42175322 AATAATTTAA
*
42175332 GTAAATATTTTCCATTAAAATTTGTCACTTTAGAATTTTGATTAT
1 GTAAATATTTTCCATTAAAATTTATCACTTTAGAATTTTGATTAT
*
42175377 GTAAATATTTTCCATTAAAATTTATCACTTTATAATTTTGATTAT
1 GTAAATATTTTCCATTAAAATTTATCACTTTAGAATTTTGATTAT
42175422 GT
1 GT
42175424 TGTTCCCATA
Statistics
Matches: 45, Mismatches: 2, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
45 45 1.00
ACGTcount: A:0.34, C:0.09, G:0.08, T:0.50
Consensus pattern (45 bp):
GTAAATATTTTCCATTAAAATTTATCACTTTAGAATTTTGATTAT
Found at i:42175919 original size:31 final size:30
Alignment explanation
Indices: 42175850--42175919 Score: 70
Period size: 31 Copynumber: 2.3 Consensus size: 30
42175840 AAGTTAACCT
* *
42175850 CTGAACTTGAAAATTGTTCTCATATTGGGA
1 CTGAACTTGAAAATTGATCCCATATTGGGA
* *
42175880 CATAAACTTGGAAATTGATCCCA-ATTTGGGGA
1 C-TGAACTTGAAAATTGATCCCATA-TT-GGGA
42175912 CTGAACTT
1 CTGAACTT
42175920 TAGGGTTTTA
Statistics
Matches: 32, Mismatches: 5, Indels: 5
0.76 0.12 0.12
Matches are distributed among these distances:
30 2 0.06
31 25 0.78
32 5 0.16
ACGTcount: A:0.31, C:0.16, G:0.20, T:0.33
Consensus pattern (30 bp):
CTGAACTTGAAAATTGATCCCATATTGGGA
Found at i:42176040 original size:59 final size:63
Alignment explanation
Indices: 42175943--42176083 Score: 136
Period size: 59 Copynumber: 2.3 Consensus size: 63
42175933 AAAAATTAGG
*
42175943 GACTAACTT-GAACAAAAAAAAGGTTCTAAGTCCCAATGT-AGGAACAAATGCCAAGTTTA-AT
1 GACTAACTTGGAACAAAAAAAAGGTTCTAAGTCCCAATGTGA-GAACAAATGCAAAGTTTAGAT
* * * *
42176004 GACTAACTTGGAA-AAAACAAA-GTTC-ATA-TCCTAATGTGAGAACAATTTCAAAGTTTAGAT
1 GACTAACTTGGAACAAAAAAAAGGTTCTA-AGTCCCAATGTGAGAACAAATGCAAAGTTTAGAT
* **
42176064 -ACTAACATGGATGAAAAAAA
1 GACTAACTTGGAACAAAAAAA
42176084 CATTTAGACC
Statistics
Matches: 67, Mismatches: 8, Indels: 11
0.78 0.09 0.13
Matches are distributed among these distances:
59 34 0.51
60 14 0.21
61 16 0.24
62 3 0.04
ACGTcount: A:0.46, C:0.14, G:0.16, T:0.24
Consensus pattern (63 bp):
GACTAACTTGGAACAAAAAAAAGGTTCTAAGTCCCAATGTGAGAACAAATGCAAAGTTTAGAT
Found at i:42179473 original size:26 final size:26
Alignment explanation
Indices: 42179402--42179474 Score: 101
Period size: 26 Copynumber: 2.8 Consensus size: 26
42179392 TATTTTCTTG
42179402 AAATTTTACTAGAGGTAAAATCGTCA
1 AAATTTTACTAGAGGTAAAATCGTCA
* * * *
42179428 AAATTTTACCATAGGCAAAATCTTCA
1 AAATTTTACTAGAGGTAAAATCGTCA
*
42179454 AAATTTTACTAGGGGTAAAAT
1 AAATTTTACTAGAGGTAAAAT
42179475 AGGGATGAGA
Statistics
Matches: 39, Mismatches: 8, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
26 39 1.00
ACGTcount: A:0.42, C:0.12, G:0.14, T:0.32
Consensus pattern (26 bp):
AAATTTTACTAGAGGTAAAATCGTCA
Found at i:42181536 original size:18 final size:18
Alignment explanation
Indices: 42181513--42181548 Score: 72
Period size: 18 Copynumber: 2.0 Consensus size: 18
42181503 ATACGAGTAC
42181513 ACAGATCAGGACAAATTT
1 ACAGATCAGGACAAATTT
42181531 ACAGATCAGGACAAATTT
1 ACAGATCAGGACAAATTT
42181549 GCTTCTAAGG
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
18 18 1.00
ACGTcount: A:0.44, C:0.17, G:0.17, T:0.22
Consensus pattern (18 bp):
ACAGATCAGGACAAATTT
Found at i:42185353 original size:6 final size:6
Alignment explanation
Indices: 42185344--42185384 Score: 82
Period size: 6 Copynumber: 6.8 Consensus size: 6
42185334 AAAATAATAA
42185344 TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGG
1 TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGGT TTGGG
42185385 GTTTAAATTT
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 35 1.00
ACGTcount: A:0.00, C:0.00, G:0.51, T:0.49
Consensus pattern (6 bp):
TTGGGT
Found at i:42189241 original size:16 final size:14
Alignment explanation
Indices: 42189220--42189257 Score: 51
Period size: 16 Copynumber: 2.6 Consensus size: 14
42189210 AAAAGAAAAT
42189220 AAAGTAAAGAAATGAA
1 AAAGTAAA-AAAT-AA
42189236 AAAGTAAAAAATAA
1 AAAGTAAAAAATAA
42189250 AAA-TAAAA
1 AAAGTAAAA
42189258 CAAAAATAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
13 5 0.23
14 5 0.23
15 4 0.18
16 8 0.36
ACGTcount: A:0.76, C:0.00, G:0.11, T:0.13
Consensus pattern (14 bp):
AAAGTAAAAAATAA
Found at i:42189252 original size:15 final size:16
Alignment explanation
Indices: 42189220--42189252 Score: 50
Period size: 15 Copynumber: 2.1 Consensus size: 16
42189210 AAAAGAAAAT
*
42189220 AAAGTAAAGAAATGAA
1 AAAGTAAAGAAATAAA
42189236 AAAGTAAA-AAATAAA
1 AAAGTAAAGAAATAAA
42189251 AA
1 AA
42189253 TAAAACAAAA
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 8 0.50
16 8 0.50
ACGTcount: A:0.76, C:0.00, G:0.12, T:0.12
Consensus pattern (16 bp):
AAAGTAAAGAAATAAA
Found at i:42206520 original size:41 final size:41
Alignment explanation
Indices: 42206475--42206552 Score: 120
Period size: 41 Copynumber: 1.9 Consensus size: 41
42206465 AATCCAAATA
** *
42206475 TGATACACTGGCACGAAGCCTGCTAGGCATAAAGCCTGATC
1 TGATACACCAGCACAAAGCCTGCTAGGCATAAAGCCTGATC
*
42206516 TGATACACCAGCATAAAGCCTGCTAGGCATAAAGCCT
1 TGATACACCAGCACAAAGCCTGCTAGGCATAAAGCCT
42206553 ACTAGGCACA
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
41 33 1.00
ACGTcount: A:0.32, C:0.27, G:0.22, T:0.19
Consensus pattern (41 bp):
TGATACACCAGCACAAAGCCTGCTAGGCATAAAGCCTGATC
Found at i:42206547 original size:16 final size:16
Alignment explanation
Indices: 42206526--42206569 Score: 70
Period size: 16 Copynumber: 2.8 Consensus size: 16
42206516 TGATACACCA
42206526 GCATAAAGCCTGCTAG
1 GCATAAAGCCTGCTAG
*
42206542 GCATAAAGCCTACTAG
1 GCATAAAGCCTGCTAG
*
42206558 GCACAAAGCCTG
1 GCATAAAGCCTG
42206570 AATATAAATG
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
16 25 1.00
ACGTcount: A:0.34, C:0.27, G:0.23, T:0.16
Consensus pattern (16 bp):
GCATAAAGCCTGCTAG
Found at i:42208704 original size:28 final size:28
Alignment explanation
Indices: 42208665--42208718 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
42208655 CGACCAGTTT
* *
42208665 AAAAAAATATTAAAATAAAGATGTTTAA
1 AAAAAAACATTAAAATAAAAATGTTTAA
**
42208693 AAAAAAACATTACTATAAAAATGTTT
1 AAAAAAACATTAAAATAAAAATGTTT
42208719 TTATTTTTGT
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 22 1.00
ACGTcount: A:0.61, C:0.04, G:0.06, T:0.30
Consensus pattern (28 bp):
AAAAAAACATTAAAATAAAAATGTTTAA
Found at i:42215437 original size:21 final size:22
Alignment explanation
Indices: 42215398--42215438 Score: 57
Period size: 21 Copynumber: 1.9 Consensus size: 22
42215388 GAATAACAAT
*
42215398 AGAAAGAAAGAAGAGAAAATGG
1 AGAAAGAAAGAAGAAAAAATGG
*
42215420 AGAAGGAAA-AAGAAAAAAT
1 AGAAAGAAAGAAGAAAAAAT
42215439 TAGAAAAATT
Statistics
Matches: 17, Mismatches: 2, Indels: 1
0.85 0.10 0.05
Matches are distributed among these distances:
21 9 0.53
22 8 0.47
ACGTcount: A:0.68, C:0.00, G:0.27, T:0.05
Consensus pattern (22 bp):
AGAAAGAAAGAAGAAAAAATGG
Found at i:42219451 original size:50 final size:50
Alignment explanation
Indices: 42219327--42219575 Score: 284
Period size: 50 Copynumber: 4.8 Consensus size: 50
42219317 GATAATAACA
* * ** * *
42219327 TGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGAT-GG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGA-CCTCTCAT-CTCGG
* *
42219378 TGCCCATGCCATGTCCCAGACATGGTCTTATAGGGGACCTCTCATCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* * *
42219428 TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTCTCGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
* *
42219478 TGCCCATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
1 TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTC---ATC-T-CGG
* *
42219533 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 -TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCT
42219576 TTACCCAAAT
Statistics
Matches: 170, Mismatches: 21, Indels: 9
0.85 0.10 0.05
Matches are distributed among these distances:
49 1 0.01
50 92 0.54
51 33 0.19
53 2 0.01
54 1 0.01
55 2 0.01
56 39 0.23
ACGTcount: A:0.20, C:0.29, G:0.24, T:0.26
Consensus pattern (50 bp):
TGCCAATGCCATGTCCCAGACATGGTCTTACAGGGGACCTCTCATCTCGG
Found at i:42219505 original size:100 final size:104
Alignment explanation
Indices: 42219326--42219575 Score: 357
Period size: 100 Copynumber: 2.4 Consensus size: 104
42219316 TGATAATAAC
**
42219326 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGATGTTCTCGTGATGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGA-CCTCTCGTGATGGTGCCCATGCCATG
* *
42219391 TCCCAGACATGGTCTTATAGGGGACCTCTC-ATC-T-CGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
* *
42219428 -TGCCAACGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGT-CTCGGTGCCCATGCCATG
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGAT-GGTGCCCATGCCATG
42219491 TCCCAGACATGGTCTTACAGGGGACCTCTCATGATCTTAAGG
65 TCCCAGACATGGTCTTACAGGGGACCTCTCA--ATCTTAAGG
* *
42219533 ATGCCAATGCCATGTCCCAGACATGGTCTTACATGGGATCTCT
1 ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCT
42219576 TTACCCAAAT
Statistics
Matches: 133, Mismatches: 8, Indels: 10
0.88 0.05 0.07
Matches are distributed among these distances:
99 1 0.01
100 50 0.38
101 36 0.27
103 3 0.02
104 1 0.01
105 2 0.02
106 40 0.30
ACGTcount: A:0.21, C:0.29, G:0.24, T:0.26
Consensus pattern (104 bp):
ATGCCAAAGCCATGTCCCAGACATGGTCTTACATGGGACCTCTCGTGATGGTGCCCATGCCATGT
CCCAGACATGGTCTTACAGGGGACCTCTCAATCTTAAGG
Found at i:42219691 original size:13 final size:13
Alignment explanation
Indices: 42219670--42219701 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
42219660 GCTTGGATCA
*
42219670 TCATCAAATAAAT
1 TCATAAAATAAAT
42219683 TCATAAAATAAAT
1 TCATAAAATAAAT
42219696 TCATAA
1 TCATAA
42219702 TTGCTGGAAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.56, C:0.12, G:0.00, T:0.31
Consensus pattern (13 bp):
TCATAAAATAAAT
Found at i:42219948 original size:30 final size:30
Alignment explanation
Indices: 42219913--42219970 Score: 89
Period size: 30 Copynumber: 1.9 Consensus size: 30
42219903 CCTCGACTCT
*
42219913 AACTTTTTCAAAATTACAATTTTGCCCCTA
1 AACTTTTACAAAATTACAATTTTGCCCCTA
* *
42219943 AACTTTTACATAATTACATTTTTGCCCC
1 AACTTTTACAAAATTACAATTTTGCCCC
42219971 AAGGCTCAGA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
30 25 1.00
ACGTcount: A:0.31, C:0.24, G:0.03, T:0.41
Consensus pattern (30 bp):
AACTTTTACAAAATTACAATTTTGCCCCTA
Found at i:42224616 original size:3 final size:3
Alignment explanation
Indices: 42224608--42224693 Score: 145
Period size: 3 Copynumber: 28.7 Consensus size: 3
42224598 TTATCTACAA
* * *
42224608 TAC TAC TAC TAC TAC TAC CAC TAC TAC TAC TAC TAT TAC TAC TAG TAC
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC
42224656 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
1 TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TAC TA
42224694 TGGAGCACTC
Statistics
Matches: 77, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
3 77 1.00
ACGTcount: A:0.34, C:0.31, G:0.01, T:0.34
Consensus pattern (3 bp):
TAC
Found at i:42225494 original size:1 final size:1
Alignment explanation
Indices: 42225488--42225512 Score: 50
Period size: 1 Copynumber: 25.0 Consensus size: 1
42225478 ATGTTGCCTC
42225488 AAAAAAAAAAAAAAAAAAAAAAAAA
1 AAAAAAAAAAAAAAAAAAAAAAAAA
42225513 GAAGATTTTG
Statistics
Matches: 24, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
1 24 1.00
ACGTcount: A:1.00, C:0.00, G:0.00, T:0.00
Consensus pattern (1 bp):
A
Done.