Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Gbar_A08
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: 119882356
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2655529 characters in sequence are not A, C, G, or T
File 124 of 362
Found at i:40985449 original size:29 final size:29
Alignment explanation
Indices: 40985404--40985522 Score: 129
Period size: 29 Copynumber: 4.2 Consensus size: 29
40985394 GTGAGCATGA
*
40985404 ATAT-AATATGATTTGGGCCT-GATGGGCC
1 ATATGAATATGAATTGGGCCTAG-TGGGCC
*
40985432 ATATGAATGTGAATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
* **
40985461 ATAAGAATATGAGCTGGGCC-AGATGGGCC
1 ATATGAATATGAATTGGGCCTAG-TGGGCC
* *
40985490 ATTTGAATAAG-ATTGGGCCTAGTGGGCC
1 ATATGAATATGAATTGGGCCTAGTGGGCC
40985518 ATATG
1 ATATG
40985523 CATGTATGTA
Statistics
Matches: 75, Mismatches: 12, Indels: 8
0.79 0.13 0.08
Matches are distributed among these distances:
28 22 0.29
29 52 0.69
30 1 0.01
ACGTcount: A:0.27, C:0.14, G:0.32, T:0.27
Consensus pattern (29 bp):
ATATGAATATGAATTGGGCCTAGTGGGCC
Found at i:40985480 original size:58 final size:57
Alignment explanation
Indices: 40985408--40985520 Score: 163
Period size: 58 Copynumber: 2.0 Consensus size: 57
40985398 GCATGAATAT
** * **
40985408 AATATGATTTGGGCCTGATGGGCCATATGAATGTGAATTGGGCCTAGTGGGCCATAAG
1 AATATGAGCTGGGCCAGATGGGCCATATGAATAAG-ATTGGGCCTAGTGGGCCATAAG
*
40985466 AATATGAGCTGGGCCAGATGGGCCATTTGAATAAGATTGGGCCTAGTGGGCCATA
1 AATATGAGCTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATA
40985521 TGCATGTATG
Statistics
Matches: 49, Mismatches: 6, Indels: 1
0.88 0.11 0.02
Matches are distributed among these distances:
57 20 0.41
58 29 0.59
ACGTcount: A:0.27, C:0.15, G:0.33, T:0.26
Consensus pattern (57 bp):
AATATGAGCTGGGCCAGATGGGCCATATGAATAAGATTGGGCCTAGTGGGCCATAAG
Found at i:40987586 original size:37 final size:37
Alignment explanation
Indices: 40987536--40987609 Score: 148
Period size: 37 Copynumber: 2.0 Consensus size: 37
40987526 CCATGTCCCA
40987536 GACATGGTCTTACACTGACACATCTCGTAGCTGATGC
1 GACATGGTCTTACACTGACACATCTCGTAGCTGATGC
40987573 GACATGGTCTTACACTGACACATCTCGTAGCTGATGC
1 GACATGGTCTTACACTGACACATCTCGTAGCTGATGC
40987610 ATGTCCCAGA
Statistics
Matches: 37, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
37 37 1.00
ACGTcount: A:0.24, C:0.27, G:0.22, T:0.27
Consensus pattern (37 bp):
GACATGGTCTTACACTGACACATCTCGTAGCTGATGC
Found at i:40987716 original size:47 final size:45
Alignment explanation
Indices: 40987605--40987729 Score: 139
Period size: 48 Copynumber: 2.7 Consensus size: 45
40987595 TCTCGTAGCT
*
40987605 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGTCTCAATGTC
1 GATGCATGTCCCAGACATGTCTTACACTAGCTCTCG-ATCAATGTC
* *
40987651 GATGCCATG-CCCTAGACATGGTTTTACACTGGCTCTC-AT-AATGTGGCC
1 GATG-CATGTCCC-AGACAT-GTCTTACACTAGCTCTCGATCAATGT---C
40987699 GATGCATGTCCCAGACATGTCTTACACTAGC
1 GATGCATGTCCCAGACATGTCTTACACTAGC
40987730 ACACAAATAA
Statistics
Matches: 67, Mismatches: 5, Indels: 14
0.78 0.06 0.16
Matches are distributed among these distances:
45 5 0.07
46 19 0.28
47 20 0.30
48 23 0.34
ACGTcount: A:0.22, C:0.29, G:0.20, T:0.29
Consensus pattern (45 bp):
GATGCATGTCCCAGACATGTCTTACACTAGCTCTCGATCAATGTC
Found at i:40993102 original size:13 final size:13
Alignment explanation
Indices: 40993084--40993111 Score: 56
Period size: 13 Copynumber: 2.2 Consensus size: 13
40993074 ATACTCGAAA
40993084 ATCACATAAGCTC
1 ATCACATAAGCTC
40993097 ATCACATAAGCTC
1 ATCACATAAGCTC
40993110 AT
1 AT
40993112 ACCATGCCAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 15 1.00
ACGTcount: A:0.39, C:0.29, G:0.07, T:0.25
Consensus pattern (13 bp):
ATCACATAAGCTC
Found at i:40997926 original size:44 final size:42
Alignment explanation
Indices: 40997858--40998004 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 42
40997848 TTTCAATATG
* **
40997858 TGATTTTGTGTAAGACCACATTTGGGACGTTGGCATCG-ATT
1 TGATTTCGTGTAAGACCATGTTTGGGACGTTGGCATCGTATT
* ** *
40997899 TGAGATTTACGTGTAAGACCATGTTTGGGACATCAGCCTCGTATT
1 T--GATTT-CGTGTAAGACCATGTTTGGGACGTTGGCATCGTATT
* *
40997944 TGATTTCATGTAAGACCCTGTTTGGGACAG-TGGCATCGTTATT
1 TGATTTCGTGTAAGACCATGTTTGGGAC-GTTGGCATCG-TATT
* *
40997987 TGATTACATGTAAGACCA
1 TGATTTCGTGTAAGACCA
40998005 CGTCTAGGAT
Statistics
Matches: 85, Mismatches: 15, Indels: 10
0.77 0.14 0.09
Matches are distributed among these distances:
41 1 0.01
42 25 0.29
43 30 0.35
44 25 0.29
45 4 0.05
ACGTcount: A:0.24, C:0.16, G:0.24, T:0.35
Consensus pattern (42 bp):
TGATTTCGTGTAAGACCATGTTTGGGACGTTGGCATCGTATT
Found at i:40997966 original size:42 final size:43
Alignment explanation
Indices: 40997905--40998004 Score: 132
Period size: 42 Copynumber: 2.3 Consensus size: 43
40997895 GATTTGAGAT
* *
40997905 TTACGTGTAAGACCATGTTTGGGACA-TCAGCCTCG-TATTTGA
1 TTACATGTAAGACCATGTTTGGGACAGT-AGCATCGTTATTTGA
* * *
40997947 TTTCATGTAAGACCCTGTTTGGGACAGTGGCATCGTTATTTGA
1 TTACATGTAAGACCATGTTTGGGACAGTAGCATCGTTATTTGA
40997990 TTACATGTAAGACCA
1 TTACATGTAAGACCA
40998005 CGTCTAGGAT
Statistics
Matches: 49, Mismatches: 7, Indels: 3
0.83 0.12 0.05
Matches are distributed among these distances:
42 28 0.57
43 21 0.43
ACGTcount: A:0.25, C:0.18, G:0.23, T:0.34
Consensus pattern (43 bp):
TTACATGTAAGACCATGTTTGGGACAGTAGCATCGTTATTTGA
Found at i:40998021 original size:43 final size:43
Alignment explanation
Indices: 40997940--40998022 Score: 105
Period size: 43 Copynumber: 1.9 Consensus size: 43
40997930 ATCAGCCTCG
* * *
40997940 TATTTGATTTCATGTAAGACCCTGTTTGGGACAGTGGCATCGT
1 TATTTGATTACATGTAAGACCCTGTCTAGGACAGTGGCATCGT
* *
40997983 TATTTGATTACATGTAAGACCAC-GTCTAGGATATTGGCAT
1 TATTTGATTACATGTAAGACC-CTGTCTAGGACAGTGGCAT
40998023 TATACAAGCT
Statistics
Matches: 34, Mismatches: 5, Indels: 2
0.83 0.12 0.05
Matches are distributed among these distances:
43 33 0.97
44 1 0.03
ACGTcount: A:0.25, C:0.16, G:0.23, T:0.36
Consensus pattern (43 bp):
TATTTGATTACATGTAAGACCCTGTCTAGGACAGTGGCATCGT
Found at i:41003163 original size:37 final size:37
Alignment explanation
Indices: 41003110--41003249 Score: 253
Period size: 37 Copynumber: 3.8 Consensus size: 37
41003100 CGAATAGTCC
*
41003110 CCACACGTAGTTATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
41003147 CCACACGTAGTCATCGGGTCTTACCCGGACATAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
41003184 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
1 CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
*
41003221 CCACACGTAGTCATCGAGTCTTACCCGGA
1 CCACACGTAGTCATCGGGTCTTACCCGGA
41003250 ATATATTTCC
Statistics
Matches: 99, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 99 1.00
ACGTcount: A:0.26, C:0.32, G:0.19, T:0.23
Consensus pattern (37 bp):
CCACACGTAGTCATCGGGTCTTACCCGGACAAAATCT
Found at i:41003476 original size:48 final size:48
Alignment explanation
Indices: 41003419--41003778 Score: 639
Period size: 48 Copynumber: 7.5 Consensus size: 48
41003409 CTAGCCGAAT
*
41003419 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCG
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* * * *
41003467 CATTAGCCATTCAGCTTTACCACGTATACATATCTCATACATATTTCG
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
* *
41003515 CATTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
41003563 CACTAGCCATTCGGCTTTACCACGTATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
41003611 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
41003659 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
41003707 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
1 CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
*
41003755 CACTAGCCATTCAGCTTTACCACA
1 CACTAGCCATTCGGCTTTACCACA
41003779 CACATATATA
Statistics
Matches: 304, Mismatches: 8, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
48 304 1.00
ACGTcount: A:0.30, C:0.29, G:0.07, T:0.33
Consensus pattern (48 bp):
CACTAGCCATTCGGCTTTACCACATATACATATCTCATACATATTTCA
Found at i:41014941 original size:15 final size:15
Alignment explanation
Indices: 41014921--41014962 Score: 66
Period size: 15 Copynumber: 2.8 Consensus size: 15
41014911 GGCATGGTCA
41014921 GGGAGAGAAGTTAAT
1 GGGAGAGAAGTTAAT
*
41014936 GGGAGAGTAGTTAAT
1 GGGAGAGAAGTTAAT
*
41014951 GGGAGATAAGTT
1 GGGAGAGAAGTT
41014963 CACGTATTAT
Statistics
Matches: 24, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
15 24 1.00
ACGTcount: A:0.36, C:0.00, G:0.40, T:0.24
Consensus pattern (15 bp):
GGGAGAGAAGTTAAT
Found at i:41020814 original size:27 final size:27
Alignment explanation
Indices: 41020784--41021143 Score: 420
Period size: 27 Copynumber: 13.4 Consensus size: 27
41020774 CCCCAAAAAA
*
41020784 GGTAAAATGACCATAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
41020811 GGTAAAATGATCGTAATGCCCTTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
41020838 GGTAAAATGACCGTAATGCCCCTATAA
1 GGTAAAATGACCGTAATGCCCCTGTAG
41020865 GGTAAAATGACCGTAATG-CCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* *
41020891 GGTAAAATGACCATAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
41020918 GGCAAAATGACCATAATGCCCCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
41020945 GGCAAAATGGCCGTAATACCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * * *
41020972 TGTAAAATGACTGTAACGCCTCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
* * *
41020999 GGTAAAATGATCATAATGCCTCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
** * *
41021026 GGTAAAATGATTGTAATGCCTCTATAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
41021053 GGTAAAATGACCGAAATGCCCCTGTAG
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
41021080 TGG-AAAAT-ACTGTAATGCCCCTGTAG
1 -GGTAAAATGACCGTAATGCCCCTGTAG
* * *
41021106 GGTAAAATGATCGTAATACCCCTGTAT
1 GGTAAAATGACCGTAATGCCCCTGTAG
*
41021133 GGTAAAGTGAC
1 GGTAAAATGAC
41021144 TATTATGCCC
Statistics
Matches: 285, Mismatches: 44, Indels: 8
0.85 0.13 0.02
Matches are distributed among these distances:
25 2 0.01
26 44 0.15
27 237 0.83
28 2 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (27 bp):
GGTAAAATGACCGTAATGCCCCTGTAG
Found at i:41020977 original size:107 final size:107
Alignment explanation
Indices: 41020784--41021138 Score: 471
Period size: 107 Copynumber: 3.3 Consensus size: 107
41020774 CCCCAAAAAA
* *
41020784 GGTAAAATGACCATAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCTTGTAGGGTAAAATGAC
1 GGTAAAATGACCATAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGAC
* *
41020849 CGTAATGCCCCTATAAG-GTAAAATGACCGTAATGCCCTGTAG
66 CGTAATGCCCCTGT-AGTGTAAAATGACTGTAATGCCCTGTAG
* * * * * *
41020891 GGTAAAATGACCATAATGCCCCTATAGGGCAAAATGACCATAATGCCCCTATAGGGCAAAATGGC
1 GGTAAAATGACCATAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGAC
* *
41020956 CGTAATACCCCTGTAGTGTAAAATGACTGTAACGCCTCTGTAG
66 CGTAATGCCCCTGTAGTGTAAAATGACTGTAATGCC-CTGTAG
* * * *
41020999 GGTAAAATGATCATAATGCCTCTGTAGGGTAAAATGATTGTAATGCCTCTATAGGGTAAAATGAC
1 GGTAAAATGACCATAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGAC
* *
41021064 CGAAATGCCCCTGTAGTGGAAAAT-ACTGTAATGCCCCTGTAG
66 CGTAATGCCCCTGTAGTGTAAAATGACTGTAATG-CCCTGTAG
* * * *
41021106 GGTAAAATGATCGTAATACCCCTGTATGGTAAA
1 GGTAAAATGACCATAATGCCCCTGTAGGGTAAA
41021139 GTGACTATTA
Statistics
Matches: 215, Mismatches: 30, Indels: 6
0.86 0.12 0.02
Matches are distributed among these distances:
106 2 0.01
107 129 0.60
108 84 0.39
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (107 bp):
GGTAAAATGACCATAATGCCCCTGTAGGGTAAAATGATCGTAATGCCCCTATAGGGTAAAATGAC
CGTAATGCCCCTGTAGTGTAAAATGACTGTAATGCCCTGTAG
Found at i:41025724 original size:47 final size:47
Alignment explanation
Indices: 41025658--41026129 Score: 759
Period size: 47 Copynumber: 10.1 Consensus size: 47
41025648 GAAATGATAG
*
41025658 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
41025705 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
41025752 TAAGGCCTAATAGCCGATGTGATTAATGTGAAAGTGTATATGTGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
41025799 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
41025846 TAAGGCCTAATAGCCGATGTGATGAATGTG-AAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
41025892 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
41025939 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTAA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
41025986 TAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
*
41026033 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * * * * * *
41026079 CAGGGCCGAGTGGCCAACGTGATGGATGTGAAAGTGCATAAATGTGA
1 TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
41026126 TAAG
1 TAAG
41026130 TCCCGAAGGG
Statistics
Matches: 402, Mismatches: 21, Indels: 4
0.94 0.05 0.01
Matches are distributed among these distances:
46 86 0.21
47 316 0.79
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (47 bp):
TAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:41025974 original size:187 final size:188
Alignment explanation
Indices: 41025658--41026129 Score: 777
Period size: 187 Copynumber: 2.5 Consensus size: 188
41025648 GAAATGATAG
41025658 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* *
41025723 GTGATGAATGTGAAAGTGTATATGTGTGATAAGGCCTAATAGCCGATGTGATTAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* *
41025788 TATATGTGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
131 TATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* *
41025846 TAAGGCCTAATAGCCGATGTGATGAATGTG-AAGTGTATATATGTGATAAGGCCTAATAGCCGAT
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
41025910 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
* *
41025975 TATATATGTAATAAGGCCTAATGGCTGATGTGATGAATGTGAAAGTGTATATATGTGA
131 TATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
* * * * * *
41026033 TAAGGCCTAATGGCCGATGTG-TGAATGTGAAAGTGTATATATGTGACAGGGCCGAGTGGCCAAC
1 TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
* * *
41026097 GTGATGGATGTGAAAGTGCATAAATGTGATAAG
66 GTGATGAATGTGAAAGTGTATATATGTGATAAG
41026130 TCCCGAAGGG
Statistics
Matches: 264, Mismatches: 19, Indels: 3
0.92 0.07 0.01
Matches are distributed among these distances:
186 8 0.03
187 227 0.86
188 29 0.11
ACGTcount: A:0.32, C:0.09, G:0.29, T:0.29
Consensus pattern (188 bp):
TAAGGCCTAATGGCCGATGTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATGGCCGAT
GTGATGAATGTGAAAGTGTATATATGTGATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTG
TATATATGTAATAAGGCCTAATAGCCGATGTGATGAATGTGAAAGTGTATATATGTGA
Found at i:41026304 original size:37 final size:37
Alignment explanation
Indices: 41026248--41026326 Score: 115
Period size: 37 Copynumber: 2.1 Consensus size: 37
41026238 CCGAGCTCTA
* *
41026248 AAGACCCGATGACTACGTGTGG-GAATTTTGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAG-ATTATGTCCGGGT
*
41026285 AAGACCCGATAACTTCGTGTGGAGATTATGTCCGGGT
1 AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
41026322 AAGAC
1 AAGAC
41026327 TTCGTAATAA
Statistics
Matches: 38, Mismatches: 3, Indels: 2
0.88 0.07 0.05
Matches are distributed among these distances:
37 37 0.97
38 1 0.03
ACGTcount: A:0.25, C:0.19, G:0.30, T:0.25
Consensus pattern (37 bp):
AAGACCCGATAACTACGTGTGGAGATTATGTCCGGGT
Found at i:41038219 original size:47 final size:47
Alignment explanation
Indices: 41037980--41038211 Score: 383
Period size: 47 Copynumber: 4.9 Consensus size: 47
41037970 GATAATTGTG
**
41037980 ATGTGAATGTGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
41038027 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
*
41038074 ATGTGAGCATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* *
41038121 ATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGTGATGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
* * * *
41038168 ATATGAACATGCATATATGTGGTAAAGCCGAATGGCTAATGTGA
1 ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGA
41038212 AATATATGTA
Statistics
Matches: 175, Mismatches: 10, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
47 175 1.00
ACGTcount: A:0.33, C:0.12, G:0.29, T:0.26
Consensus pattern (47 bp):
ATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGTGATGA
Found at i:41038466 original size:37 final size:37
Alignment explanation
Indices: 41038416--41038565 Score: 212
Period size: 37 Copynumber: 4.1 Consensus size: 37
41038406 GGAAATATAT
41038416 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
*
41038453 TCCGGGTAAGACCCGATGACTACGTGTGAAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
* * *
41038490 TCCGGGTATGACCCGATGACTACGTGTGGAGATTTTTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGA-TTATG
* * * *
41038528 TTCGGGTAAGACCCGATAACTTCGTGTGGA-ATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
41038564 TC
1 TC
41038566 TGAGCTAAAG
Statistics
Matches: 101, Mismatches: 11, Indels: 3
0.88 0.10 0.03
Matches are distributed among these distances:
36 5 0.05
37 67 0.66
38 29 0.29
ACGTcount: A:0.23, C:0.19, G:0.29, T:0.29
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
Found at i:41046605 original size:27 final size:28
Alignment explanation
Indices: 41046589--41046963 Score: 348
Period size: 27 Copynumber: 13.8 Consensus size: 28
41046579 AATGCCCTCA
* * *
41046589 ATTTATAAAATTACTAAAATGCCC-CTG
1 ATTTGTAAAATTACCAAAATACCCTCTG
* *
41046616 GTCTGTAAAATTACCAAAATACCC-CTG
1 ATTTGTAAAATTACCAAAATACCCTCTG
*
41046643 GTTTGTAAAATTACCAAAATACCC-CT-
1 ATTTGTAAAATTACCAAAATACCCTCTG
*
41046669 AGTTTGTGAAATTACCAAAATACCC-CTG
1 A-TTTGTAAAATTACCAAAATACCCTCTG
* *
41046697 ATTTGTGAAATTACTAAAATACCCTC-G
1 ATTTGTAAAATTACCAAAATACCCTCTG
*
41046724 ACTTGTAAAATTACCAAAATACCC-CTG
1 ATTTGTAAAATTACCAAAATACCCTCTG
* *
41046751 ATTTGTGAAATTACTAAAATACCCTC-G
1 ATTTGTAAAATTACCAAAATACCCTCTG
* *
41046778 ACTTGCAAAATTACCAAAATACCCT-TG
1 ATTTGTAAAATTACCAAAATACCCTCTG
* **
41046805 GTTTACAAAATTACCAAAATACCC-CTG
1 ATTTGTAAAATTACCAAAATACCCTCTG
* *
41046832 GTTTGTAAAATTACCAAAATACCC-CTA
1 ATTTGTAAAATTACCAAAATACCCTCTG
* *** * *
41046859 ATTTGTGAAATTAATGAAATACCTTCAG
1 ATTTGTAAAATTACCAAAATACCCTCTG
**
41046887 -TTT-TCAAAATTACTGAAATACCCTC-G
1 ATTTGT-AAAATTACCAAAATACCCTCTG
**
41046913 ATTTGTAAAATTACTGAAATACCCTC-G
1 ATTTGTAAAATTACCAAAATACCCTCTG
*
41046940 ACTTGTAAAAATTACCAAAATACC
1 ATTTGT-AAAATTACCAAAATACC
41046964 TCGAATTTAC
Statistics
Matches: 297, Mismatches: 39, Indels: 23
0.83 0.11 0.06
Matches are distributed among these distances:
26 3 0.01
27 274 0.92
28 20 0.07
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (28 bp):
ATTTGTAAAATTACCAAAATACCCTCTG
Found at i:41046967 original size:54 final size:54
Alignment explanation
Indices: 41046589--41046963 Score: 400
Period size: 54 Copynumber: 6.9 Consensus size: 54
41046579 AATGCCCTCA
* * * *
41046589 ATTTATAAAATTACTAAAATGCCCCTGGTC-TGTAAAATTACCAAAATACCCCTG
1 ATTTGTAAAATTACTAAAAT-ACCCTCGACTTGTAAAATTACCAAAATACCCCTG
* * * * *
41046643 GTTTGTAAAATTACCAAAATACCC-CTAGTTTGTGAAATTACCAAAATACCCCTG
1 ATTTGTAAAATTACTAAAATACCCTCGA-CTTGTAAAATTACCAAAATACCCCTG
*
41046697 ATTTGTGAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTG
1 ATTTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTG
* * *
41046751 ATTTGTGAAATTACTAAAATACCCTCGACTTGCAAAATTACCAAAATACCCTTG
1 ATTTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTG
* ** * ** *
41046805 GTTTACAAAATTACCAAAATACCC-CTGGTTTGTAAAATTACCAAAATACCCCTA
1 ATTTGTAAAATTACTAAAATACCCTC-GACTTGTAAAATTACCAAAATACCCCTG
* * * * * * **
41046859 ATTTGTGAAATTAATGAAATACCTTC-AGTTTTCAAAATTACTGAAATA-CCCTCG
1 ATTTGTAAAATTACTAAAATACCCTCGACTTGT-AAAATTACCAAAATACCCCT-G
*
41046913 ATTTGTAAAATTACTGAAATACCCTCGACTTGTAAAAATTACCAAAATACC
1 ATTTGTAAAATTACTAAAATACCCTCGACTTGT-AAAATTACCAAAATACC
41046964 TCGAATTTAC
Statistics
Matches: 263, Mismatches: 49, Indels: 16
0.80 0.15 0.05
Matches are distributed among these distances:
53 11 0.04
54 231 0.88
55 20 0.08
56 1 0.00
ACGTcount: A:0.39, C:0.21, G:0.09, T:0.30
Consensus pattern (54 bp):
ATTTGTAAAATTACTAAAATACCCTCGACTTGTAAAATTACCAAAATACCCCTG
Found at i:41047050 original size:27 final size:27
Alignment explanation
Indices: 41047010--41047171 Score: 234
Period size: 27 Copynumber: 6.0 Consensus size: 27
41047000 CAAAACTATT
* *
41047010 GAAAAACCCTTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
*
41047037 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
41047064 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* *
41047091 GAAATACCCTTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACC
*
41047118 GAAACACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
* * * *
41047145 GAGATACCCTTGTGGGGTAAAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACC
41047172 ATTTTGCCCC
Statistics
Matches: 121, Mismatches: 14, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
27 121 1.00
ACGTcount: A:0.33, C:0.20, G:0.23, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACC
Found at i:41047182 original size:54 final size:54
Alignment explanation
Indices: 41047009--41047170 Score: 261
Period size: 54 Copynumber: 3.0 Consensus size: 54
41046999 ACAAAACTAT
* * *
41047009 TGAAAAACCCTTGTAGGGTAGAATTACCGAAATACCCCTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTAC
41047063 TGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTAC
* * * *
41047117 TGAAACACCCCTGTAGGGTAGAATTACCGAGATACCCTTGTGGGGTAAAATTAC
1 TGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTAC
41047171 CATTTTGCCC
Statistics
Matches: 101, Mismatches: 7, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
54 101 1.00
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (54 bp):
TGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCTTGTAGGGTAGAATTAC
Found at i:41047412 original size:25 final size:25
Alignment explanation
Indices: 41047376--41047445 Score: 113
Period size: 25 Copynumber: 2.8 Consensus size: 25
41047366 AGGAAGTGCT
*
41047376 AAAAGGGCTTTGCCCCAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACCA
* *
41047401 AAAAGGGTTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTACCA
41047426 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
41047446 ATTAAAAGAG
Statistics
Matches: 41, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
25 41 1.00
ACGTcount: A:0.26, C:0.24, G:0.23, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACCA
Found at i:41050410 original size:21 final size:21
Alignment explanation
Indices: 41050386--41050426 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
41050376 ATAATCAGAA
41050386 GAAAATATAG-ATAAAATGAAT
1 GAAAATA-AGAATAAAATGAAT
*
41050407 GAAAATAAGAATAATATGAA
1 GAAAATAAGAATAAAATGAA
41050427 AAACAACCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 2 0.11
21 16 0.89
ACGTcount: A:0.63, C:0.00, G:0.15, T:0.22
Consensus pattern (21 bp):
GAAAATAAGAATAAAATGAAT
Found at i:41052615 original size:119 final size:120
Alignment explanation
Indices: 41052433--41052655 Score: 283
Period size: 119 Copynumber: 1.9 Consensus size: 120
41052423 TCCTCGTTCA
* *
41052433 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
* *
41052498 TTAGTAAC-TCGCACAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCACAAA-GCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* * * **
41052553 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACGAATACCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATACCTTCGGGA-CTTAACCCGG
* * *
41052615 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
41052656 CATCATTCAA
Statistics
Matches: 88, Mismatches: 12, Indels: 7
0.82 0.11 0.07
Matches are distributed among these distances:
118 4 0.05
119 64 0.73
120 20 0.23
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATACCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:41052655 original size:40 final size:40
Alignment explanation
Indices: 41052431--41052655 Score: 269
Period size: 40 Copynumber: 5.7 Consensus size: 40
41052421 GCTCCTCGTT
* *
41052431 CAAATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
41052471 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
41052511 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
* *
41052551 CCAATGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGATA-TAGTAACTCGCA
* * * * * *
41052590 CGAATACCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGATATAGTAAC-TCGCA
41052631 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41052656 CATCATTCAA
Statistics
Matches: 161, Mismatches: 18, Indels: 12
0.84 0.09 0.06
Matches are distributed among these distances:
38 2 0.01
39 30 0.19
40 118 0.73
41 11 0.07
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGATATAGTAACTCGCA
Found at i:41059459 original size:31 final size:31
Alignment explanation
Indices: 41059421--41059482 Score: 115
Period size: 31 Copynumber: 2.0 Consensus size: 31
41059411 GTATGATTTA
*
41059421 TGGACTATTTTAAACAATGTGATCATTAAAT
1 TGGACTATTTTAAACAATGTGATAATTAAAT
41059452 TGGACTATTTTAAACAATGTGATAATTAAAT
1 TGGACTATTTTAAACAATGTGATAATTAAAT
41059483 AAGTGAAATT
Statistics
Matches: 30, Mismatches: 1, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.40, C:0.08, G:0.13, T:0.39
Consensus pattern (31 bp):
TGGACTATTTTAAACAATGTGATAATTAAAT
Found at i:41063652 original size:14 final size:15
Alignment explanation
Indices: 41063633--41063661 Score: 51
Period size: 14 Copynumber: 2.0 Consensus size: 15
41063623 TATAGCCGCT
41063633 AAAAGAAGAA-AAAA
1 AAAAGAAGAAGAAAA
41063647 AAAAGAAGAAGAAAA
1 AAAAGAAGAAGAAAA
41063662 TCATATGCAC
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
14 10 0.71
15 4 0.29
ACGTcount: A:0.83, C:0.00, G:0.17, T:0.00
Consensus pattern (15 bp):
AAAAGAAGAAGAAAA
Found at i:41064241 original size:43 final size:44
Alignment explanation
Indices: 41064193--41064279 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
41064183 TCTAGAAATA
*
41064193 TTTTTATCTTTTAGT-AGTTTACTAGAATAAGGGAACTATTTTC
1 TTTTTATCTTTTAGTAAATTTACTAGAATAAGGGAACTATTTTC
* *
41064236 TTTTTATGTTTTAGTAAATTTATTAGAATAAGGGAACTATTTTC
1 TTTTTATCTTTTAGTAAATTTACTAGAATAAGGGAACTATTTTC
41064280 CCAATTAGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 14 0.35
44 26 0.65
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (44 bp):
TTTTTATCTTTTAGTAAATTTACTAGAATAAGGGAACTATTTTC
Found at i:41068785 original size:43 final size:44
Alignment explanation
Indices: 41068737--41068823 Score: 140
Period size: 44 Copynumber: 2.0 Consensus size: 44
41068727 TCTAGAAATA
41068737 TTTTTATCTTTTAGT-AGTTTACTAGAATAAGGAAACTATTTTC
1 TTTTTATCTTTTAGTAAGTTTACTAGAATAAGGAAACTATTTTC
* * *
41068780 TTTTTATGTTTTAGTAAGTTTATTAGAATAAGGGAACTATTTTC
1 TTTTTATCTTTTAGTAAGTTTACTAGAATAAGGAAACTATTTTC
41068824 CCAATTAGGA
Statistics
Matches: 40, Mismatches: 3, Indels: 1
0.91 0.07 0.02
Matches are distributed among these distances:
43 14 0.35
44 26 0.65
ACGTcount: A:0.30, C:0.07, G:0.14, T:0.49
Consensus pattern (44 bp):
TTTTTATCTTTTAGTAAGTTTACTAGAATAAGGAAACTATTTTC
Found at i:41076612 original size:15 final size:17
Alignment explanation
Indices: 41076574--41076615 Score: 52
Period size: 15 Copynumber: 2.6 Consensus size: 17
41076564 AATTTAAGGT
*
41076574 TTAAGATTTTATTATTG
1 TTAATATTTTATTATTG
41076591 TTAATATTTTA-TA-TG
1 TTAATATTTTATTATTG
*
41076606 TTTATATTTT
1 TTAATATTTT
41076616 TTTCAATAAA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
15 11 0.48
16 2 0.09
17 10 0.43
ACGTcount: A:0.29, C:0.00, G:0.07, T:0.64
Consensus pattern (17 bp):
TTAATATTTTATTATTG
Found at i:41081612 original size:39 final size:40
Alignment explanation
Indices: 41081495--41081718 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
41081485 GCTCCTCATT
* *
41081495 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAAT-TAGTAACTCGCA
* *
41081535 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
*
41081575 CAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* *
41081614 CAATTGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
* * *
41081653 CAAATGCCTTC-GGATCTTAGTCCGGATATT-GTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAGCCCGGA-ATTAGTAAC-TCGCA
41081694 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAGCCCGGA
41081719 CATCATTCAA
Statistics
Matches: 166, Mismatches: 12, Indels: 12
0.87 0.06 0.06
Matches are distributed among these distances:
38 2 0.01
39 70 0.42
40 78 0.47
41 16 0.10
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.25
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGGAATTAGTAACTCGCA
Found at i:41081678 original size:118 final size:120
Alignment explanation
Indices: 41081499--41081718 Score: 299
Period size: 118 Copynumber: 1.9 Consensus size: 120
41081489 CTCATTCAAA
*
41081499 TGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT-T
1 TGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATAT
*
41081563 TAGTAAC-TCGCACAAATGCCTTCGGG-CTTAGCCCGGAATTAGTATCTCGCACAAT
66 T-GTAACTTAGCACAAA-GCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAT
* * **
41081618 TGCCTTCGGG-CTTAGCCCGGA-ATTAGTATCTCGCACAAATGCCTTC-GGATCTTAGTCCGGAT
1 TGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGGAT
*
41081680 ATTGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATTGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
41081719 CATCATTCAA
Statistics
Matches: 89, Mismatches: 7, Indels: 10
0.84 0.07 0.09
Matches are distributed among these distances:
117 4 0.04
118 54 0.61
119 31 0.35
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (120 bp):
TGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGATAT
TGTAACTTAGCACAAAGCCTTCGGGACTTAGCCCGGAATTAGTATCTCGCACAAT
Found at i:41083409 original size:49 final size:49
Alignment explanation
Indices: 41083345--41083526 Score: 220
Period size: 49 Copynumber: 3.7 Consensus size: 49
41083335 CTGGTACTCA
*
41083345 TAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* * * * * ***
41083394 CAGTAGCCTGCACTTAGTACTACAAACGTGATCGAAGTTATCGGGTACGTA
1 TAGTAGCCTGCACTTAGTACTACACATGTGA-CCAA-TTATCCGGTACACG
* * *
41083445 TAGTATCCTGCACTTAGTACTACACATGTGACCAATAATTCGGTACACG
1 TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
* *
41083494 TAGTAACCTGCACTTAGTACTACACACGTGACC
1 TAGTAGCCTGCACTTAGTACTACACATGTGACC
41083527 TCACAATAGG
Statistics
Matches: 109, Mismatches: 22, Indels: 4
0.81 0.16 0.03
Matches are distributed among these distances:
49 66 0.61
50 6 0.06
51 37 0.34
ACGTcount: A:0.30, C:0.26, G:0.19, T:0.26
Consensus pattern (49 bp):
TAGTAGCCTGCACTTAGTACTACACATGTGACCAATTATCCGGTACACG
Found at i:41083510 original size:100 final size:100
Alignment explanation
Indices: 41083344--41083524 Score: 299
Period size: 100 Copynumber: 1.8 Consensus size: 100
41083334 TCTGGTACTC
* *
41083344 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATTATCCGGTACACGCAGTAGCCTGCACTT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGCAGTAACCTGCACTT
41083409 AGTACTACAAACGTGATCGAAGTTATCGGGTACGT
66 AGTACTACAAACGTGATCGAAGTTATCGGGTACGT
* * * *
41083444 ATAGTATCCTGCACTTAGTACTACACATGTGACCAATAATTCGGTACACGTAGTAACCTGCACTT
1 ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGCAGTAACCTGCACTT
*
41083509 AGTACTACACACGTGA
66 AGTACTACAAACGTGA
41083525 CCTCACAATA
Statistics
Matches: 74, Mismatches: 7, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
100 74 1.00
ACGTcount: A:0.30, C:0.25, G:0.19, T:0.26
Consensus pattern (100 bp):
ATAGTAGCCTGCACTTAGTACTACACATGCGACCAATAATCCGGTACACGCAGTAACCTGCACTT
AGTACTACAAACGTGATCGAAGTTATCGGGTACGT
Found at i:41085414 original size:39 final size:39
Alignment explanation
Indices: 41085362--41085459 Score: 106
Period size: 39 Copynumber: 2.5 Consensus size: 39
41085352 TTTTTTCGAG
* * * *
41085362 TATTGTGACATATGCTTAAATGTTATGTGATTATATGAA
1 TATTATGATATATGCTTAAATGTTAGGCGATTATATGAA
* ** **
41085401 TATTCTGATATATGCTTGTATGTTAGGCGATTATATGTG
1 TATTATGATATATGCTTAAATGTTAGGCGATTATATGAA
*
41085440 TAATATGATATATGCTTAAA
1 TATTATGATATATGCTTAAA
41085460 AATGAATATG
Statistics
Matches: 47, Mismatches: 12, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
39 47 1.00
ACGTcount: A:0.32, C:0.06, G:0.18, T:0.44
Consensus pattern (39 bp):
TATTATGATATATGCTTAAATGTTAGGCGATTATATGAA
Found at i:41091880 original size:46 final size:46
Alignment explanation
Indices: 41091760--41091881 Score: 217
Period size: 46 Copynumber: 2.7 Consensus size: 46
41091750 AACCCGCCCC
* * *
41091760 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
41091806 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
41091852 TAAGTGAACTCGGACTCAACTCAACGAGTT
1 TAAGTGAACTCGGACTCAACTCAACGAGTT
41091882 TGGATGCTCA
Statistics
Matches: 73, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
46 73 1.00
ACGTcount: A:0.30, C:0.28, G:0.21, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
Found at i:41091904 original size:46 final size:45
Alignment explanation
Indices: 41091762--41091904 Score: 137
Period size: 46 Copynumber: 3.1 Consensus size: 45
41091752 CCCGCCCCTA
* ** * *
41091762 AGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTC-GCATCCAT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*** *
41091807 AAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTC-GCATCCAT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCC-T
*
41091853 AAGTGAACTCGGACTCAACTCAACGAGTTTGGATGCTCAACCATCCT
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTC-ACCATCCT
41091900 AGTGA
1 AGTGA
41091905 CATGTCACTT
Statistics
Matches: 87, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
46 81 0.93
47 1 0.01
48 5 0.06
ACGTcount: A:0.29, C:0.28, G:0.22, T:0.22
Consensus pattern (45 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCACCATCCT
Found at i:41093944 original size:27 final size:22
Alignment explanation
Indices: 41093890--41093934 Score: 90
Period size: 22 Copynumber: 2.0 Consensus size: 22
41093880 TAAAAAAATT
41093890 ATTGATGAAATGAAATCCAAAC
1 ATTGATGAAATGAAATCCAAAC
41093912 ATTGATGAAATGAAATCCAAAC
1 ATTGATGAAATGAAATCCAAAC
41093934 A
1 A
41093935 CTTTGGTGAT
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
22 23 1.00
ACGTcount: A:0.51, C:0.13, G:0.13, T:0.22
Consensus pattern (22 bp):
ATTGATGAAATGAAATCCAAAC
Found at i:41095317 original size:16 final size:16
Alignment explanation
Indices: 41095296--41095329 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
41095286 TTTAAGAAAA
* *
41095296 TATTATTCTATTCTAT
1 TATTATTATATTATAT
41095312 TATTATTATATTATAT
1 TATTATTATATTATAT
41095328 TA
1 TA
41095330 CCATTATAAT
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:0.32, C:0.06, G:0.00, T:0.62
Consensus pattern (16 bp):
TATTATTATATTATAT
Found at i:41098274 original size:41 final size:40
Alignment explanation
Indices: 41098195--41098307 Score: 172
Period size: 41 Copynumber: 2.8 Consensus size: 40
41098185 TTCATTGCTA
* *
41098195 TCCTTTTCAACCTTTTCATTGATATCCTATTTGGATAACG
1 TCCTTTTCAACCTTTTCATTGATATCCTTTTTGAATAACG
*
41098235 TCCTTTTCAACCTTTTTATTTGATATCCTTTTTGAATAACG
1 TCCTTTTCAACCTTTTCA-TTGATATCCTTTTTGAATAACG
*
41098276 TCTTTTTCAACCTTTTCAGTTGATATCCTTTT
1 TCCTTTTCAACCTTTTCA-TTGATATCCTTTT
41098308 CAACCTTTTC
Statistics
Matches: 66, Mismatches: 6, Indels: 1
0.90 0.08 0.01
Matches are distributed among these distances:
40 17 0.26
41 49 0.74
ACGTcount: A:0.20, C:0.21, G:0.08, T:0.50
Consensus pattern (40 bp):
TCCTTTTCAACCTTTTCATTGATATCCTTTTTGAATAACG
Found at i:41098333 original size:25 final size:25
Alignment explanation
Indices: 41098280--41098333 Score: 74
Period size: 25 Copynumber: 2.2 Consensus size: 25
41098270 ATAACGTCTT
*
41098280 TTTCAACCTTTTCAGTTGATATCCT
1 TTTCAACCTTTTCAGTTGATATCCC
*
41098305 TTTCAACCTTTTCA-TATGTTATCCC
1 TTTCAACCTTTTCAGT-TGATATCCC
41098330 TTTC
1 TTTC
41098334 GGGTAACTTC
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
24 1 0.04
25 25 0.96
ACGTcount: A:0.19, C:0.26, G:0.06, T:0.50
Consensus pattern (25 bp):
TTTCAACCTTTTCAGTTGATATCCC
Found at i:41098779 original size:43 final size:43
Alignment explanation
Indices: 41098718--41098820 Score: 197
Period size: 43 Copynumber: 2.4 Consensus size: 43
41098708 GGAAATTTAC
41098718 AAACTTGAATTTAACCTTTTATGCAATTTAGTCCCTAAACCCA
1 AAACTTGAATTTAACCTTTTATGCAATTTAGTCCCTAAACCCA
41098761 AAACTTGAATTTAACCTTTTATGCAATTTAGTCCCTAAACCCA
1 AAACTTGAATTTAACCTTTTATGCAATTTAGTCCCTAAACCCA
41098804 AAACTTGCAATTTAACC
1 AAACTTG-AATTTAACC
41098821 ACTTGTAATT
Statistics
Matches: 59, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
43 50 0.85
44 9 0.15
ACGTcount: A:0.36, C:0.23, G:0.07, T:0.34
Consensus pattern (43 bp):
AAACTTGAATTTAACCTTTTATGCAATTTAGTCCCTAAACCCA
Found at i:41125413 original size:40 final size:41
Alignment explanation
Indices: 41125349--41125441 Score: 111
Period size: 40 Copynumber: 2.3 Consensus size: 41
41125339 ATCTCAGTAT
* *
41125349 CACACACTTAGT-GCCTCTTATAGCCGAAGCTA-TTCCAAC
1 CACACACTTAGTGGCATCTTATAGCCAAAGCTATTTCCAAC
* * *
41125388 TCGCACACTTAGTGGCAT-TTGTAGCCAAAGCTATTTCGAAC
1 -CACACACTTAGTGGCATCTTATAGCCAAAGCTATTTCCAAC
41125429 CACACACTTAGTG
1 CACACACTTAGTG
41125442 CCGAACGTAG
Statistics
Matches: 45, Mismatches: 6, Indels: 4
0.82 0.11 0.07
Matches are distributed among these distances:
40 36 0.80
41 9 0.20
ACGTcount: A:0.28, C:0.29, G:0.16, T:0.27
Consensus pattern (41 bp):
CACACACTTAGTGGCATCTTATAGCCAAAGCTATTTCCAAC
Found at i:41130396 original size:47 final size:47
Alignment explanation
Indices: 41130342--41130531 Score: 290
Period size: 47 Copynumber: 4.0 Consensus size: 47
41130332 GATTTCATGC
** * * *
41130342 GATGAATGTGAATGTGTATATAAGAGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
41130389 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* *
41130436 GATGAATGTGAGCATGCATATGTGTGATAAGGCCGAATGGCCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
* * *
41130483 GATGAATATGAACATGCATATATGTGATAAAGCCGAATGGTCAATGT
1 GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
41130530 GA
1 GA
41130532 AATATATATA
Statistics
Matches: 131, Mismatches: 12, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
47 131 1.00
ACGTcount: A:0.35, C:0.11, G:0.28, T:0.26
Consensus pattern (47 bp):
GATGAATGTGAACATGCATATATGTGATAAGGCCGAATGGCCAATGT
Found at i:41130438 original size:22 final size:22
Alignment explanation
Indices: 41130367--41130485 Score: 59
Period size: 22 Copynumber: 5.1 Consensus size: 22
41130357 GTATATAAGA
41130367 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* * *
41130389 GATGAATG-TGAACAT-GCATATATGT
1 GAT-AAGGCCG-A-ATGGC-CA-ATGT
41130414 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
* *
41130436 GATGAATGTG-AGCAT-G-CATATGTGT
1 GAT-AA-G-GCCGAATGGCCA-A--TGT
41130461 GATAAGGCCGAATGGCCAATGT
1 GATAAGGCCGAATGGCCAATGT
41130483 GAT
1 GAT
41130486 GAATATGAAC
Statistics
Matches: 71, Mismatches: 10, Indels: 32
0.63 0.09 0.28
Matches are distributed among these distances:
22 20 0.28
23 17 0.24
24 17 0.24
25 17 0.24
ACGTcount: A:0.32, C:0.13, G:0.30, T:0.24
Consensus pattern (22 bp):
GATAAGGCCGAATGGCCAATGT
Found at i:41130568 original size:50 final size:50
Alignment explanation
Indices: 41130501--41130634 Score: 220
Period size: 48 Copynumber: 2.7 Consensus size: 50
41130491 TGAACATGCA
* *
41130501 TATATGTGATAAAGCCGAATGG-TCAATGTGAAATATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCT-AGTGTGAAATATATATATGAGATATG
41130551 TATATGTGGTAAAGCCGAATGGCTAGTGTG-AA-ATATATATGAGATATG
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAGATATG
41130599 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
1 TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATAT
41130635 GTAGGCGATG
Statistics
Matches: 79, Mismatches: 2, Indels: 6
0.91 0.02 0.07
Matches are distributed among these distances:
48 46 0.58
49 4 0.05
50 28 0.35
51 1 0.01
ACGTcount: A:0.37, C:0.07, G:0.25, T:0.31
Consensus pattern (50 bp):
TATATGTGGTAAAGCCGAATGGCTAGTGTGAAATATATATATGAGATATG
Found at i:41130892 original size:37 final size:37
Alignment explanation
Indices: 41130784--41130892 Score: 182
Period size: 37 Copynumber: 2.9 Consensus size: 37
41130774 GGAAATATAT
*
41130784 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTATG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
41130821 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* * *
41130858 TCCGGGTGAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
41130893 CGTCTGAGCT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
37 68 1.00
ACGTcount: A:0.22, C:0.19, G:0.32, T:0.27
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:41141379 original size:68 final size:67
Alignment explanation
Indices: 41141307--41141456 Score: 171
Period size: 67 Copynumber: 2.2 Consensus size: 67
41141297 CATCATGTGT
* * * *
41141307 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACC
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACC
41141369 ATGTAG
62 ATGTAG
** * *
41141375 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
41141440 AG
66 AG
41141442 ACAAGAGAGCTACGA
1 ACAAGAGAGCTACGA
41141457 GATAAACTGG
Statistics
Matches: 70, Mismatches: 9, Indels: 7
0.81 0.10 0.08
Matches are distributed among these distances:
64 20 0.29
65 7 0.10
66 4 0.06
67 26 0.37
68 13 0.19
ACGTcount: A:0.33, C:0.17, G:0.29, T:0.21
Consensus pattern (67 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGGATACAAGTGAAGGACACCATGT
AG
Found at i:41141412 original size:64 final size:64
Alignment explanation
Indices: 41141331--41141514 Score: 194
Period size: 67 Copynumber: 2.8 Consensus size: 64
41141321 AGACATTATG
* *
41141331 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * * * *
41141395 ATGTAGCTAGGTCGCATGCGTGGTTCCAAGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGT-GATACTA-TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
41141460 AA
63 AA
* * * *
41141462 ACTG--GCTAGGTCACATGGGTGGTACTAAGTGTTCACCATGT-GTACAAGAGAGC
1 A-TGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAG-ACAAGAGAGC
41141515 CGAACTATAT
Statistics
Matches: 98, Mismatches: 17, Indels: 11
0.78 0.13 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 21 0.21
65 8 0.08
66 16 0.16
67 31 0.32
68 2 0.02
ACGTcount: A:0.30, C:0.17, G:0.30, T:0.23
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:41146701 original size:39 final size:40
Alignment explanation
Indices: 41146618--41146706 Score: 103
Period size: 40 Copynumber: 2.2 Consensus size: 40
41146608 CTCAGTATCG
* *
41146618 CACACTTAGTGCCTCTTATAGCAGAAGCTATTCCAACTCG
1 CACACTTAGTGCCTATTATAGCAGAAGCTATTCCAACTCA
* *
41146658 CACACTTAGTGCC-ATTGTAGCCA-AAGCTATTTCGAACT-A
1 CACACTTAGTGCCTATTATAG-CAGAAGCTA-TTCCAACTCA
41146697 CACACTTAGT
1 CACACTTAGT
41146707 CTAAACATAG
Statistics
Matches: 43, Mismatches: 4, Indels: 5
0.83 0.08 0.10
Matches are distributed among these distances:
39 21 0.49
40 22 0.51
ACGTcount: A:0.29, C:0.28, G:0.15, T:0.28
Consensus pattern (40 bp):
CACACTTAGTGCCTATTATAGCAGAAGCTATTCCAACTCA
Found at i:41152292 original size:5 final size:5
Alignment explanation
Indices: 41152282--41152313 Score: 64
Period size: 5 Copynumber: 6.4 Consensus size: 5
41152272 TTATGTTTTA
41152282 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
1 ATTAT ATTAT ATTAT ATTAT ATTAT ATTAT AT
41152314 AAACTAAAGA
Statistics
Matches: 27, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
5 27 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (5 bp):
ATTAT
Found at i:41153604 original size:15 final size:15
Alignment explanation
Indices: 41153584--41153640 Score: 89
Period size: 15 Copynumber: 3.9 Consensus size: 15
41153574 CGATGAATTT
41153584 ATTGAATTTATATTG
1 ATTGAATTTATATTG
* *
41153599 ATTGAAATTATTTTG
1 ATTGAATTTATATTG
41153614 ATTGAATTTATATTG
1 ATTGAATTTATATTG
41153629 ATTGAA-TTATAT
1 ATTGAATTTATAT
41153641 AATATATATG
Statistics
Matches: 38, Mismatches: 4, Indels: 1
0.88 0.09 0.02
Matches are distributed among these distances:
14 6 0.16
15 32 0.84
ACGTcount: A:0.35, C:0.00, G:0.12, T:0.53
Consensus pattern (15 bp):
ATTGAATTTATATTG
Found at i:41154060 original size:21 final size:22
Alignment explanation
Indices: 41154025--41154084 Score: 70
Period size: 21 Copynumber: 2.8 Consensus size: 22
41154015 AGGCACTTTA
*
41154025 TGTGTCGTATTTCAGTCAACTCG
1 TGTGTCGTA-TTCAGGCAACTCG
*
41154048 TGTGTCGTA-TCAGGCACCTCG
1 TGTGTCGTATTCAGGCAACTCG
*
41154069 TGTGTCGT-TTTAGGCA
1 TGTGTCGTATTCAGGCA
41154085 CTTTATGTGT
Statistics
Matches: 33, Mismatches: 3, Indels: 4
0.82 0.08 0.10
Matches are distributed among these distances:
21 24 0.73
23 9 0.27
ACGTcount: A:0.15, C:0.22, G:0.27, T:0.37
Consensus pattern (22 bp):
TGTGTCGTATTCAGGCAACTCG
Found at i:41154093 original size:21 final size:21
Alignment explanation
Indices: 41154015--41154097 Score: 60
Period size: 21 Copynumber: 3.9 Consensus size: 21
41154005 TTTATCGATC
*
41154015 AGGCACTTTATGTGTCGTATTT
1 AGGCACTTCATGTGTCGT-TTT
* * * *
41154037 CAGTCAAC-TCGTGTGTCGTATC
1 -AGGC-ACTTCATGTGTCGTTTT
* *
41154059 AGGCACCTCGTGTGTCGTTTT
1 AGGCACTTCATGTGTCGTTTT
*
41154080 AGGCACTTTATGTGTCGT
1 AGGCACTTCATGTGTCGT
41154098 ACTCTGATCA
Statistics
Matches: 47, Mismatches: 11, Indels: 6
0.73 0.17 0.09
Matches are distributed among these distances:
20 2 0.04
21 30 0.64
22 1 0.02
23 12 0.26
24 2 0.04
ACGTcount: A:0.16, C:0.20, G:0.25, T:0.39
Consensus pattern (21 bp):
AGGCACTTCATGTGTCGTTTT
Found at i:41158121 original size:46 final size:46
Alignment explanation
Indices: 41158071--41158236 Score: 184
Period size: 46 Copynumber: 3.6 Consensus size: 46
41158061 AGCATCCGAG
41158071 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAA
* *
41158117 CTCGTTGAGTTGAGTCCGAG-T---TTGTGAGATG-TAACTAGGCATCTGAA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATG-GATGCGAA-T--G--TCTGAA
* *
41158164 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAACG-CTCGAG
1 CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCT-GAA
41158210 CTCGTTGA-TTGAGTCCGAGTTCACTTA
1 CTCGTTGAGTTGAGTCCGAGTTCACTTA
41158237 GGGGCGGGTT
Statistics
Matches: 102, Mismatches: 6, Indels: 25
0.77 0.05 0.19
Matches are distributed among these distances:
42 6 0.06
43 5 0.05
45 23 0.23
46 30 0.29
47 26 0.25
48 2 0.02
50 4 0.04
51 6 0.06
ACGTcount: A:0.21, C:0.19, G:0.28, T:0.32
Consensus pattern (46 bp):
CTCGTTGAGTTGAGTCCGAGTTCACTTATGGATGCGAATGTCTGAA
Found at i:41165746 original size:39 final size:39
Alignment explanation
Indices: 41165695--41165772 Score: 138
Period size: 39 Copynumber: 2.0 Consensus size: 39
41165685 GGTCTTACAC
*
41165695 GAAATCAGATATGATGCCGATGTCCCACACATGGTCTTA
1 GAAATCAGATATGATACCGATGTCCCACACATGGTCTTA
*
41165734 GAAATTAGATATGATACCGATGTCCCACACATGGTCTTA
1 GAAATCAGATATGATACCGATGTCCCACACATGGTCTTA
41165773 CACGTAAAAC
Statistics
Matches: 37, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
39 37 1.00
ACGTcount: A:0.32, C:0.22, G:0.19, T:0.27
Consensus pattern (39 bp):
GAAATCAGATATGATACCGATGTCCCACACATGGTCTTA
Found at i:41169031 original size:48 final size:48
Alignment explanation
Indices: 41168922--41169383 Score: 643
Period size: 48 Copynumber: 9.6 Consensus size: 48
41168912 CATACTCCAC
*
41168922 ACATATTTCACACTAGCCATTCGGCTTTACCACATATAACATATCTCAT
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATAT-ACATATCTCAT
*
41168971 ACATATTTCACATTAGCCATTCGGCGTTACCACATATACATATCTCAT
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
* *
41169019 ACATATTTCACATTAGCCATTCTGCTTTACCACATATATACATTTCTCAT
1 ACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATATCTCAT
* *
41169069 ACATATTTCACATTAGCCATTCAGCTTTACCGCATATACATATCTCAT
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
* *
41169117 ATATATTTCACAGTAGCCATTCGGCTTTACCACATATACATATCTCAT
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
*
41169165 ACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATTTCTCAT
1 ACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACATATCTCAT
*
41169215 ACATATTTCACATTAGCCATTCGGCTTTACCGCATATACATATCTCAT
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
* * *
41169263 -TATATTTCACAGTAGCCATTC-GCTTTACCACATATATATTATCTCAT
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACA-TATCTCAT
*
41169310 ACATATTTCACATTAGCCATTTGGC-TTA-CACATATA-ATACTTTCTCAT
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATA---TCTCAT
*
41169358 --ATATTTCCACCTTAGCCATTC-GCTTT
1 ACATATTT-CACATTAGCCATTCGGCTTT
41169384 TGCCACTATT
Statistics
Matches: 375, Mismatches: 26, Indels: 26
0.88 0.06 0.06
Matches are distributed among these distances:
45 2 0.01
46 24 0.06
47 49 0.13
48 172 0.46
49 37 0.10
50 91 0.24
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (48 bp):
ACATATTTCACATTAGCCATTCGGCTTTACCACATATACATATCTCAT
Found at i:41169108 original size:98 final size:97
Alignment explanation
Indices: 41168922--41169383 Score: 640
Period size: 98 Copynumber: 4.8 Consensus size: 97
41168912 CATACTCCAC
*
41168922 ACATATTTCACACTAGCCATTCGGCTTTACCACATATA-ACATATCTCATACATATTTCACATTA
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATCTCATACATATTTCACATTA
*
41168986 GCCATTCGGCGTTACCACATATACATATCTCAT
66 GCCATTC-GCTTTACCACATATACATATCTCAT
* *
41169019 ACATATTTCACATTAGCCATTCTGCTTTACCACATATATACATTTCTCATACATATTTCACATTA
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATCTCATACATATTTCACATTA
*
41169084 GCCATTCAGCTTTACCGCATATACATATCTCAT
66 GCCATTC-GCTTTACCACATATACATATCTCAT
* *
41169117 ATATATTTCACAGTAGCCATTCGGCTTTACCAC--ATATACATATCTCATACATATTTCACATTA
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATCTCATACATATTTCACATTA
*
41169180 GCCATTCGGCTTTACCACATATATACATTTCTCAT
66 GCCATTC-GCTTTACCAC--ATATACATATCTCAT
* * *
41169215 ACATATTTCACATTAGCCATTCGGCTTTACCGC--ATATACATATCTCAT-TATATTTCACAGTA
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATCTCATACATATTTCACATTA
*
41169277 GCCATTCGCTTTACCACATATATATTATCTCAT
66 GCCATTCGCTTTACCACATATACA-TATCTCAT
* * *
41169310 ACATATTTCACATTAGCCATTTGGC-TTA-CACATATAATAC-TTTCTCAT--ATATTTCCACCT
1 ACATATTTCACATTAGCCATTCGGCTTTACCACATAT-ATACATATCTCATACATATTT-CACAT
41169370 TAGCCATTCGCTTT
64 TAGCCATTCGCTTT
41169384 TGCCACTATT
Statistics
Matches: 332, Mismatches: 25, Indels: 18
0.89 0.07 0.05
Matches are distributed among these distances:
93 2 0.01
94 15 0.05
95 57 0.17
96 59 0.18
97 55 0.17
98 144 0.43
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (97 bp):
ACATATTTCACATTAGCCATTCGGCTTTACCACATATATACATATCTCATACATATTTCACATTA
GCCATTCGCTTTACCACATATACATATCTCAT
Found at i:41169147 original size:146 final size:146
Alignment explanation
Indices: 41168922--41169383 Score: 735
Period size: 146 Copynumber: 3.2 Consensus size: 146
41168912 CATACTCCAC
* * * *
41168922 ACATATTTCACACTAGCCATTCGGCTTTACCACATATAACATATCTCATACATATTTCACATTAG
1 ACATATTTCACATTAGCCATTCGGCTTTACCGCATAT-ACATATCTCATATATATTTCACAGTAG
*
41168987 CCATTCGGCGTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCTGCTTTACCAC
65 CCATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCTGCTTTACCAC
41169052 ATATATACATTTCTCAT
130 ATATATACATTTCTCAT
*
41169069 ACATATTTCACATTAGCCATTCAGCTTTACCGCATATACATATCTCATATATATTTCACAGTAGC
1 ACATATTTCACATTAGCCATTCGGCTTTACCGCATATACATATCTCATATATATTTCACAGTAGC
*
41169134 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACA
66 CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCTGCTTTACCACA
41169199 TATATACATTTCTCAT
131 TATATACATTTCTCAT
41169215 ACATATTTCACATTAGCCATTCGGCTTTACCGCATATACATATCTCAT-TATATTTCACAGTAGC
1 ACATATTTCACATTAGCCATTCGGCTTTACCGCATATACATATCTCATATATATTTCACAGTAGC
*
41169279 CATTC-GCTTTACCACATATATATTATCTCATACATATTTCACATTAGCCATT-TGGC-TTA-CA
66 CATTCGGCTTTACCACATATACA-TATCTCATACATATTTCACATTAGCCATTCT-GCTTTACCA
41169340 CATATAATAC-TTTCTCAT
129 CATAT-ATACATTTCTCAT
*
41169358 --ATATTTCCACCTTAGCCATTC-GCTTT
1 ACATATTT-CACATTAGCCATTCGGCTTT
41169384 TGCCACTATT
Statistics
Matches: 300, Mismatches: 11, Indels: 14
0.92 0.03 0.04
Matches are distributed among these distances:
141 11 0.04
142 13 0.04
143 15 0.05
144 23 0.08
145 52 0.17
146 152 0.51
147 34 0.11
ACGTcount: A:0.30, C:0.26, G:0.07, T:0.37
Consensus pattern (146 bp):
ACATATTTCACATTAGCCATTCGGCTTTACCGCATATACATATCTCATATATATTTCACAGTAGC
CATTCGGCTTTACCACATATACATATCTCATACATATTTCACATTAGCCATTCTGCTTTACCACA
TATATACATTTCTCAT
Found at i:41172667 original size:28 final size:27
Alignment explanation
Indices: 41172635--41172739 Score: 95
Period size: 28 Copynumber: 3.7 Consensus size: 27
41172625 CTGACTGATT
*
41172635 TCGCACACATAGCGCTCGATTAAAGAAC
1 TCGCACACATAGTGCTC-ATTAAAGAAC
* *
41172663 TCGCACACATAGTGCCTCAATTACCA-ATC
1 TCGCACACATAGTG-CTC-ATTA-AAGAAC
*
41172692 TCGCACACATAGTGCTCAGTTGAAGAAC
1 TCGCACACATAGTGCTCA-TTAAAGAAC
* *
41172720 TTGCACACACAGTGCCTCAT
1 TCGCACACATAGTG-CTCAT
41172740 AACTCAAGCA
Statistics
Matches: 63, Mismatches: 9, Indels: 10
0.77 0.11 0.12
Matches are distributed among these distances:
27 2 0.03
28 33 0.52
29 27 0.43
30 1 0.02
ACGTcount: A:0.31, C:0.30, G:0.16, T:0.22
Consensus pattern (27 bp):
TCGCACACATAGTGCTCATTAAAGAAC
Found at i:41172810 original size:40 final size:40
Alignment explanation
Indices: 41172766--41173180 Score: 507
Period size: 40 Copynumber: 10.4 Consensus size: 40
41172756 CCTTCGAGGT
*
41172766 TTAGCCTGGATATATCA-CTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCATC-AGCACGAATGCTCTTCGGAAC
* * * *
41172806 TTAGCCCGGATACATTA-CTAGCATGAATGCTCTTCGAAAC
1 TTAGCCCGGATATATCATC-AGCACGAATGCTCTTCGGAAC
* *
41172846 TTAGCCCGGATACATTA-CTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCATC-AGCACGAATGCTCTTCGGAAC
* *
41172886 TTAGCCTGGATACATCA-CTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCATC-AGCACGAATGCTCTTCGGAAC
* *
41172926 TTAGCCCGGATACATTA-CTAGCACGAATGCTCTTCGGAAC
1 TTAGCCCGGATATATCATC-AGCACGAATGCTCTTCGGAAC
* *
41172966 TTAGCCCGGATATAACATCAGCACGAATGCTCTTCGAAAC
1 TTAGCCCGGATATATCATCAGCACGAATGCTCTTCGGAAC
* *
41173006 TTAGCCCGGATATAACATCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCATCAGCACGAATGCTCTTCGGAAC
* * *
41173046 TTAGCCCGGCTATAACATCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCATCAGCACGAATGCTCTTCGGAAC
* * * * *
41173086 TTAGCCCGGCTATAACATCAGCACAAATGCTATTCGGGAC
1 TTAGCCCGGATATATCATCAGCACGAATGCTCTTCGGAAC
* * *
41173126 TTAGCCCGGCTATAACATCAGCACGAATGCTCTTCGGGAC
1 TTAGCCCGGATATATCATCAGCACGAATGCTCTTCGGAAC
*
41173166 TTAGCCCGGCTATAT
1 TTAGCCCGGATATAT
41173181 AACTCTCAAT
Statistics
Matches: 351, Mismatches: 23, Indels: 2
0.93 0.06 0.01
Matches are distributed among these distances:
40 350 1.00
41 1 0.00
ACGTcount: A:0.28, C:0.27, G:0.20, T:0.25
Consensus pattern (40 bp):
TTAGCCCGGATATATCATCAGCACGAATGCTCTTCGGAAC
Found at i:41174729 original size:48 final size:48
Alignment explanation
Indices: 41174671--41175215 Score: 949
Period size: 48 Copynumber: 11.4 Consensus size: 48
41174661 ATATACACAC
* *
41174671 ATCTCCTACATATTTCACACTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
41174719 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
41174767 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
41174815 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
*
41174863 ATCTCATACATATTTCACATTAGCCATTC-GCTTTACCCATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTA-CCACATATACAT
41174911 -TCTCATACATATTTCACATTAGCCATTCGGCTTTACC-CATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
41174957 ATCTCAT--ATATTTCACA-TAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
41175002 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
41175050 TTCTCATACATATTTCACATTAGCCATTCGGCTTTACCGCATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
* *
41175098 ATCTCATATATATTTCACAGTAGCCATTCGGCTTTACCACATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
41175146 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATATACAT
1 ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCAC--ATATACAT
*
41175196 TTCTCATACATATTTCACAT
1 ATCTCATACATATTTCACAT
41175216 ATTCACTACA
Statistics
Matches: 475, Mismatches: 13, Indels: 16
0.94 0.03 0.03
Matches are distributed among these distances:
44 18 0.04
45 26 0.05
46 8 0.02
47 52 0.11
48 344 0.72
50 27 0.06
ACGTcount: A:0.30, C:0.27, G:0.06, T:0.36
Consensus pattern (48 bp):
ATCTCATACATATTTCACATTAGCCATTCGGCTTTACCACATATACAT
Found at i:41180875 original size:49 final size:48
Alignment explanation
Indices: 41180815--41181090 Score: 245
Period size: 50 Copynumber: 5.6 Consensus size: 48
41180805 GTGAATACAT
*
41180815 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTGGATTGTTGGTCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACT-CATTGTTGGTCAC
* * * ** * *
41180864 ATGTGTAGTACTAAGTGTAGGCTACTATGCATACTCAATGACTTCGATCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCATTG--TT-GGTCAC
* * *
41180915 GTGTGTAGTACTAAGTGCAGGCTACATGCGT-T-CTCAATGACTTCGATCAC
1 GTGTGTAGTACTAAGTGCAGGCTAC-TACGTGTACTCATTG--TT-GGTCAC
* *
41180965 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTA-TCAGATGGTGAGGTCAC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTC--ATTGT-TGGTCAC
* * **
41181015 GTGTGTAGTACTAAGCGTAGGCTACTACGTGTAC-CGAATTGTTGGTTGC
1 GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTC--ATTGTTGGTCAC
*
41181064 ATGTGTAGTACTAAGTGCAGGCTACTA
1 GTGTGTAGTACTAAGTGCAGGCTACTA
41181091 TACGTATCAG
Statistics
Matches: 188, Mismatches: 29, Indels: 20
0.79 0.12 0.08
Matches are distributed among these distances:
48 3 0.02
49 62 0.33
50 90 0.48
51 29 0.15
52 4 0.02
ACGTcount: A:0.24, C:0.18, G:0.27, T:0.31
Consensus pattern (48 bp):
GTGTGTAGTACTAAGTGCAGGCTACTACGTGTACTCATTGTTGGTCAC
Found at i:41181219 original size:27 final size:26
Alignment explanation
Indices: 41181189--41181240 Score: 61
Period size: 27 Copynumber: 2.0 Consensus size: 26
41181179 GGGAAAATCG
41181189 ATAAAGTGGTAATATGTG-AAAGTTATT
1 ATAAAGTGG--ATATGTGCAAAGTTATT
* *
41181216 ATAAGGTGGATATGTGCAAATTTAT
1 ATAAAGTGGATATGTGCAAAGTTAT
41181241 GTTTATGAAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
25 7 0.32
26 7 0.32
27 8 0.36
ACGTcount: A:0.38, C:0.02, G:0.23, T:0.37
Consensus pattern (26 bp):
ATAAAGTGGATATGTGCAAAGTTATT
Found at i:41196192 original size:49 final size:49
Alignment explanation
Indices: 41196133--41196357 Score: 265
Period size: 49 Copynumber: 4.5 Consensus size: 49
41196123 TGAATACACG
* * *
41196133 TGTGTAGTACTAAGTGCAAGCTACTACATGTACCGGATTGTTGGTCACA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCACA
* * * * *
41196182 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACTCA-A-TGACTTCGATTACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATTG--TT-GGTCACA
* * * * *
41196233 TGTGTAGTACTAAGTGCAGGCTATTACGTGTATCAGATGGTGAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGT-TGGTCACA
*
41196283 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCACA
41196332 TGTGTAGTACTAAGTGCAGGCTACTA
1 TGTGTAGTACTAAGTGCAGGCTACTA
41196358 TGCGTATCAT
Statistics
Matches: 147, Mismatches: 22, Indels: 14
0.80 0.12 0.08
Matches are distributed among these distances:
48 2 0.01
49 61 0.41
50 49 0.33
51 34 0.23
52 1 0.01
ACGTcount: A:0.25, C:0.17, G:0.27, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTGGTCACA
Found at i:41196258 original size:28 final size:28
Alignment explanation
Indices: 41196227--41196313 Score: 80
Period size: 28 Copynumber: 3.3 Consensus size: 28
41196217 AATGACTTCG
41196227 ATTACGTGTGTAGTACTAAGTGCAGGCT
1 ATTACGTGTGTAGTACTAAGTGCAGGCT
* *
41196255 ATTACGTGTATCAG-A-T-GGTG-AGG--
1 ATTACGTGTGT-AGTACTAAGTGCAGGCT
*
41196278 -TCACGTGTGTAGTACTAAGTGCAGGCT
1 ATTACGTGTGTAGTACTAAGTGCAGGCT
*
41196305 ACTACGTGT
1 ATTACGTGT
41196314 ACCAGATTGT
Statistics
Matches: 44, Mismatches: 7, Indels: 16
0.66 0.10 0.24
Matches are distributed among these distances:
21 2 0.05
22 9 0.20
23 1 0.02
24 3 0.07
25 6 0.14
26 3 0.07
27 1 0.02
28 17 0.39
29 2 0.05
ACGTcount: A:0.24, C:0.15, G:0.30, T:0.31
Consensus pattern (28 bp):
ATTACGTGTGTAGTACTAAGTGCAGGCT
Found at i:41199629 original size:37 final size:38
Alignment explanation
Indices: 41199579--41199654 Score: 145
Period size: 37 Copynumber: 2.0 Consensus size: 38
41199569 GCTCAGACGA
41199579 AATCTCCACACGTAGTCATCGGGTCTTACCCGG-ATAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGAATAT
41199616 AATCTCCACACGTAGTCATCGGGTCTTACCCGGAATAT
1 AATCTCCACACGTAGTCATCGGGTCTTACCCGGAATAT
41199654 A
1 A
41199655 TTACCAAGTT
Statistics
Matches: 38, Mismatches: 0, Indels: 1
0.97 0.00 0.03
Matches are distributed among these distances:
37 33 0.87
38 5 0.13
ACGTcount: A:0.26, C:0.29, G:0.18, T:0.26
Consensus pattern (38 bp):
AATCTCCACACGTAGTCATCGGGTCTTACCCGGAATAT
Found at i:41199934 original size:50 final size:50
Alignment explanation
Indices: 41199799--41199945 Score: 226
Period size: 50 Copynumber: 3.0 Consensus size: 50
41199789 CATCGCCTAC
* *
41199799 ATATTTCACACT-AGCCATTCGGCTTTACCACATATACATATCTCATATAT
1 ATATTTCACATTGA-CCATTCGGCTTTACCACATATGCATATCTCATATAT
*
41199849 ATATTTCACATTGACCAGTCGGCTTTACCACATATGCATATCTCATATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
* *
41199899 ATATTTCACATTGACCATTCGGTTTTACCACATATGCATGT-TCATAT
1 ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATAT
41199946 TCACCACATT
Statistics
Matches: 90, Mismatches: 6, Indels: 3
0.91 0.06 0.03
Matches are distributed among these distances:
49 6 0.07
50 83 0.92
51 1 0.01
ACGTcount: A:0.30, C:0.24, G:0.09, T:0.37
Consensus pattern (50 bp):
ATATTTCACATTGACCATTCGGCTTTACCACATATGCATATCTCATATAT
Found at i:41199995 original size:47 final size:47
Alignment explanation
Indices: 41199904--41200095 Score: 280
Period size: 47 Copynumber: 4.1 Consensus size: 47
41199894 TATATATATT
* ** * *
41199904 TCACATTGACCATTCGGTTTTA-C-CACATATGCATGTTCATATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
*
41199949 CCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
41199996 TCACATTGGCCATTCGGCCTTATCACATATATGCATGCTCACATTTA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
* *
41200043 TCACATTGGCCATTCGGCCTTATCACATATATGCATGTTCACATTCA
1 TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
41200090 TCACAT
1 TCACAT
41200096 AAAATCCTAA
Statistics
Matches: 134, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
45 18 0.13
46 1 0.01
47 115 0.86
ACGTcount: A:0.26, C:0.29, G:0.12, T:0.33
Consensus pattern (47 bp):
TCACATTGGCCATTCGGCCTTATCACACATATGCATGCTCACATTCA
Found at i:41200022 original size:22 final size:22
Alignment explanation
Indices: 41199995--41200070 Score: 66
Period size: 22 Copynumber: 3.3 Consensus size: 22
41199985 GCTCACATTC
41199995 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
* * *
41200017 ATCACATATATG-CATGCTC-ACATTT
1 ATCACAT-T-GGCCAT--TCGGC-CTT
41200042 ATCACATTGGCCATTCGGCCTT
1 ATCACATTGGCCATTCGGCCTT
41200064 ATCACAT
1 ATCACAT
41200071 ATATGCATGT
Statistics
Matches: 41, Mismatches: 6, Indels: 14
0.67 0.10 0.23
Matches are distributed among these distances:
22 18 0.44
23 6 0.15
24 6 0.15
25 11 0.27
ACGTcount: A:0.25, C:0.29, G:0.13, T:0.33
Consensus pattern (22 bp):
ATCACATTGGCCATTCGGCCTT
Found at i:41202466 original size:40 final size:40
Alignment explanation
Indices: 41202278--41202502 Score: 280
Period size: 40 Copynumber: 5.7 Consensus size: 40
41202268 TTGAATGATG
* * * *
41202278 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAA
* *
41202318 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACT-AA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
* * *
41202357 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGATACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAGTTACTAAA
41202397 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
*
41202437 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-AA
*
41202478 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41202503 AACGAGGAGC
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
39 39 0.23
40 118 0.71
41 10 0.06
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
Found at i:41208415 original size:40 final size:40
Alignment explanation
Indices: 41208219--41208444 Score: 255
Period size: 40 Copynumber: 5.7 Consensus size: 40
41208209 TTGAATGATG
* * * *
41208219 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCATA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAA-TTACTAAA
*
41208259 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGA-TACTAAA
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGA-ATTACTAAA
* ** *
41208299 TCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGCTACTAAT
1 TCCGGGCTAAG-TCCCGAAGGCATTTGTGCGAATTACTAAA
*
41208339 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAAA
* *
41208379 TCCGGGTTAAGTCCCGAAGGCATTTGTCCGAATTACTATAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTA-AA
*
41208420 -CCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
41208445 AACGAGGAGC
Statistics
Matches: 165, Mismatches: 15, Indels: 12
0.86 0.08 0.06
Matches are distributed among these distances:
39 1 0.01
40 152 0.92
41 11 0.07
42 1 0.01
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGAATTACTAAA
Found at i:41208436 original size:120 final size:120
Alignment explanation
Indices: 41208219--41208444 Score: 291
Period size: 120 Copynumber: 1.9 Consensus size: 120
41208209 TTGAATGATG
*
41208219 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCATATCCGGACTAAGATCCGAAGGCATTT
1 TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
*
41208284 GTGCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAT
66 GTCCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAT
* * * **
41208339 TCCGGGCTAAGTCCCGAAGGCATTTGTGC-GAGTTACTAAATCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTAAGTGACCAAATCCGGACTAAGAT-CCGAAGGCAT
* *
41208402 TTGTCCGA-ATTACTATAA-CCGGGCTATG-TCCCGAAGGCATTTG
64 TTGTCCGAGA-TACTA-AATCCGGACTAAGAT-CCGAAGGCATTTG
41208445 AACGAGGAGC
Statistics
Matches: 92, Mismatches: 9, Indels: 10
0.83 0.08 0.09
Matches are distributed among these distances:
119 3 0.03
120 80 0.87
121 9 0.10
ACGTcount: A:0.26, C:0.23, G:0.26, T:0.25
Consensus pattern (120 bp):
TCCGGGCTAAGTCCCGAAGGCTTTGTGCTAAGTGACCAAATCCGGACTAAGATCCGAAGGCATTT
GTCCGAGATACTAAATCCGGACTAAGATCCGAAGGCATTTGTGCGAGCTACTAAT
Found at i:41208462 original size:80 final size:79
Alignment explanation
Indices: 41208272--41208477 Score: 204
Period size: 80 Copynumber: 2.6 Consensus size: 79
41208262 GGACTAAGAT
** * * *
41208272 CCGAAGGCATTTGTGCGAGAT-ACTAAATCCGGACTAAGAT-CCGAAGGCATTTGTGCGAGCTAC
1 CCGAAGGCATTTGAACGAG-TGACTAAATCCGG-TTAA-ATCCCGAAGGCATTTGTCCGAACTAC
*
41208335 TAATTCCGGGCTAAGTC
63 TAATACCGGGCTAAGTC
** * * *
41208352 CCGAAGGCATTTGTGCGAGTTACTAAATCCGGGTTAAGTCCCGAAGGCATTTGTCCGAATTACT-
1 CCGAAGGCATTTGAACGAGTGACTAAATCC-GGTTAAATCCCGAAGGCATTTGTCCGAACTACTA
*
41208416 ATAACCGGGCTATGTC
65 AT-ACCGGGCTAAGTC
* *
41208432 CCGAAGGCATTTGAACGAG-GAGCTATATCCGGTTAAATTCCGAAGG
1 CCGAAGGCATTTGAACGAGTGA-CTAAATCCGGTTAAATCCCGAAGG
41208478 TACGTGATTT
Statistics
Matches: 108, Mismatches: 13, Indels: 11
0.82 0.10 0.08
Matches are distributed among these distances:
79 19 0.18
80 87 0.81
81 2 0.02
ACGTcount: A:0.27, C:0.22, G:0.26, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGAACGAGTGACTAAATCCGGTTAAATCCCGAAGGCATTTGTCCGAACTACTAA
TACCGGGCTAAGTC
Found at i:41211473 original size:42 final size:41
Alignment explanation
Indices: 41211414--41211535 Score: 147
Period size: 43 Copynumber: 2.9 Consensus size: 41
41211404 TAGGGTTATT
41211414 TGAGATTACGTGTAAGACCATATCTGGGATATGGCATCGATA
1 TGAGATT-CGTGTAAGACCATATCTGGGATATGGCATCGATA
* *
41211456 TGAGACTTCGTGTAAGACCATAGT-TAGGCTATTGGCATCGATA
1 TGAGA-TTCGTGTAAGACCATA-TCTGGGATA-TGGCATCGATA
* * *
41211499 TCAGATCCAATGTAAGACCATATCTGGGATATGGCAT
1 TGAGATTC-GTGTAAGACCATATCTGGGATATGGCAT
41211536 TGGTATGGTG
Statistics
Matches: 68, Mismatches: 7, Indels: 10
0.80 0.08 0.12
Matches are distributed among these distances:
42 33 0.49
43 35 0.51
ACGTcount: A:0.30, C:0.16, G:0.25, T:0.29
Consensus pattern (41 bp):
TGAGATTCGTGTAAGACCATATCTGGGATATGGCATCGATA
Found at i:41216968 original size:48 final size:48
Alignment explanation
Indices: 41216865--41217000 Score: 145
Period size: 48 Copynumber: 2.9 Consensus size: 48
41216855 CTAGATATGG
* * * *
41216865 TCTTATAC-GAGATCTCATA-CGACGTCGATGCCAGGTCCCAAACGTGG
1 TCTTATACAG-GATCTCATATCGATGTCGATGCCATGTCCCAAACATGA
* * * *
41216912 TTTTATACAGGGTCTCGTAAT-GATG-CTGATGCCATGTCCTAAACATGA
1 TCTTATACAGGATCTCAT-ATCGATGTC-GATGCCATGTCCCAAACATGA
41216960 TCTTATACAGGATCTCATATCGATGTCGATGCCATGTCCCA
1 TCTTATACAGGATCTCATATCGATGTCGATGCCATGTCCCA
41217001 GGCATGGACT
Statistics
Matches: 71, Mismatches: 12, Indels: 11
0.76 0.13 0.12
Matches are distributed among these distances:
47 16 0.23
48 54 0.76
49 1 0.01
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (48 bp):
TCTTATACAGGATCTCATATCGATGTCGATGCCATGTCCCAAACATGA
Found at i:41217013 original size:48 final size:48
Alignment explanation
Indices: 41216861--41217025 Score: 142
Period size: 48 Copynumber: 3.5 Consensus size: 48
41216851 TATCCTAGAT
* * *
41216861 ATGGTCTTATAC-GAGATCTCATA-CGACGTCGATGCCAGGTCCCAAAC
1 ATGGACTTATACAG-GATCTCATATCGATGTCGATGCCATGTCCCAAAC
* ** * * *
41216908 GTGGTTTTATACAGGGTCTCGTAAT-GATG-CTGATGCCATGTCCTAAAC
1 ATGGACTTATACAGGATCTCAT-ATCGATGTC-GATGCCATGTCCCAAAC
**
41216956 AT-GATCTTATACAGGATCTCATATCGATGTCGATGCCATGTCCCAGGC
1 ATGGA-CTTATACAGGATCTCATATCGATGTCGATGCCATGTCCCAAAC
* *
41217004 ATGGACTTATACGGGATATCAT
1 ATGGACTTATACAGGATCTCAT
41217026 CAACCCAAAT
Statistics
Matches: 93, Mismatches: 17, Indels: 15
0.74 0.14 0.12
Matches are distributed among these distances:
47 20 0.22
48 70 0.75
49 3 0.03
ACGTcount: A:0.26, C:0.22, G:0.22, T:0.29
Consensus pattern (48 bp):
ATGGACTTATACAGGATCTCATATCGATGTCGATGCCATGTCCCAAAC
Found at i:41220191 original size:43 final size:43
Alignment explanation
Indices: 41220052--41220217 Score: 145
Period size: 43 Copynumber: 3.9 Consensus size: 43
41220042 GAAGTTAGAA
* * * * ** ** *
41220052 ATCCAAGCTCGTTGAGTGGTCCGAGTTCGTTATATATGTGAGA
1 ATCCGAGCTCGTTGAGAGGTCCAAGTTCATTATGGATGCAAGC
* * * * ** **
41220095 ATCCGAACTTGTTGAGTGGTCCAAGTTCATGATATATG-TGGC
1 ATCCGAGCTCGTTGAGAGGTCCAAGTTCATTATGGATGCAAGC
**
41220137 ATCCGAGCTCGTTGAGAGGTCTGAGTTCATTATGGATGCAAGC
1 ATCCGAGCTCGTTGAGAGGTCCAAGTTCATTATGGATGCAAGC
*
41220180 ATCCGGGCTCGTTGAGAGGTCCAAGTTCATTATGGATG
1 ATCCGAGCTCGTTGAGAGGTCCAAGTTCATTATGGATG
41220218 TATACATGTT
Statistics
Matches: 100, Mismatches: 22, Indels: 2
0.81 0.18 0.02
Matches are distributed among these distances:
42 31 0.31
43 69 0.69
ACGTcount: A:0.23, C:0.17, G:0.29, T:0.31
Consensus pattern (43 bp):
ATCCGAGCTCGTTGAGAGGTCCAAGTTCATTATGGATGCAAGC
Found at i:41220721 original size:50 final size:50
Alignment explanation
Indices: 41220667--41220767 Score: 193
Period size: 50 Copynumber: 2.0 Consensus size: 50
41220657 CCAAAAATTG
41220667 TGGAAAATGAATTAGAGACTTAATAAGATATGAGATTAAATCTTATTGAA
1 TGGAAAATGAATTAGAGACTTAATAAGATATGAGATTAAATCTTATTGAA
*
41220717 TGGAAATTGAATTAGAGACTTAATAAGATATGAGATTAAATCTTATTGAA
1 TGGAAAATGAATTAGAGACTTAATAAGATATGAGATTAAATCTTATTGAA
41220767 T
1 T
41220768 CTAGTTTCAT
Statistics
Matches: 50, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
50 50 1.00
ACGTcount: A:0.45, C:0.04, G:0.18, T:0.34
Consensus pattern (50 bp):
TGGAAAATGAATTAGAGACTTAATAAGATATGAGATTAAATCTTATTGAA
Found at i:41227576 original size:27 final size:27
Alignment explanation
Indices: 41227545--41227719 Score: 215
Period size: 27 Copynumber: 6.5 Consensus size: 27
41227535 ATTACCAAAG
*
41227545 TTACAGAATTATCGTTTTACCCTTGAT
1 TTACAGAATTACCGTTTTACCCTTGAT
*
41227572 TTACAGAATTACCGTTTTACCCTCGAT
1 TTACAGAATTACCGTTTTACCCTTGAT
* *
41227599 TTATAGAATTACCATTTTACCCTTGAT
1 TTACAGAATTACCGTTTTACCCTTGAT
*
41227626 TCACAGAATTACCGTTTTACCCTTGAT
1 TTACAGAATTACCGTTTTACCCTTGAT
* * *
41227653 TTACAGAATTACCATTTTACACTCGAT
1 TTACAGAATTACCGTTTTACCCTTGAT
* *****
41227680 TTACAAAATTACTAAAATACCCTTGAT
1 TTACAGAATTACCGTTTTACCCTTGAT
*
41227707 TTACAAAATTACC
1 TTACAGAATTACC
41227720 AAAATACCCC
Statistics
Matches: 128, Mismatches: 20, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
27 128 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (27 bp):
TTACAGAATTACCGTTTTACCCTTGAT
Found at i:41227682 original size:81 final size:81
Alignment explanation
Indices: 41227547--41227719 Score: 247
Period size: 81 Copynumber: 2.1 Consensus size: 81
41227537 TACCAAAGTT
* * * * *
41227547 ACAGAATTATCGTTTTACCCTTGATTTACAGAATTACCGTTTTACCCTCGATTTATAGAATTACC
1 ACAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTTTACACTCGATTTACAAAATTACC
***
41227612 ATTTTACCCTTGATTC
66 AAAATACCCTTGATTC
*
41227628 ACAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTTTACACTCGATTTACAAAATTACT
1 ACAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTTTACACTCGATTTACAAAATTACC
*
41227693 AAAATACCCTTGATTT
66 AAAATACCCTTGATTC
*
41227709 ACAAAATTACC
1 ACAGAATTACC
41227720 AAAATACCCC
Statistics
Matches: 81, Mismatches: 11, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
81 81 1.00
ACGTcount: A:0.32, C:0.22, G:0.08, T:0.38
Consensus pattern (81 bp):
ACAGAATTACCGTTTTACCCTTGATTTACAGAATTACCATTTTACACTCGATTTACAAAATTACC
AAAATACCCTTGATTC
Found at i:41227723 original size:27 final size:27
Alignment explanation
Indices: 41227562--41227840 Score: 161
Period size: 27 Copynumber: 10.3 Consensus size: 27
41227552 ATTATCGTTT
* ****
41227562 TACCCTTGATTTACAGAATTACCGTTT
1 TACCCTTGATTTACAAAATTACCAAAA
* * * ***
41227589 TACCCTCGATTTATAGAATTACCATTT
1 TACCCTTGATTTACAAAATTACCAAAA
* * ****
41227616 TACCCTTGATTCACAGAATTACCGTTT
1 TACCCTTGATTTACAAAATTACCAAAA
* ***
41227643 TACCCTTGATTTACAGAATTACCATTT
1 TACCCTTGATTTACAAAATTACCAAAA
* * *
41227670 TACACTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
41227697 TACCCTTGATTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* **
41227724 TACCCCT-AGTTTGTAAAATTACCAAAA
1 TACCCTTGA-TTTACAAAATTACCAAAA
* * * *
41227751 TACCATTGGTTTGA-GAAATTACCGAAA
1 TACCCTTGATTT-ACAAAATTACCAAAA
** ** *
41227778 TACCAC-CAATTTGTAAAATTATCAAAA
1 TACC-CTTGATTTACAAAATTACCAAAA
*
41227805 TACCCCTGATTTACAAAATTA-CAGAAA
1 TACCCTTGATTTACAAAATTACCA-AAA
41227832 TACCCTTGA
1 TACCCTTGA
41227841 CTTTTTTAAA
Statistics
Matches: 204, Mismatches: 41, Indels: 14
0.79 0.16 0.05
Matches are distributed among these distances:
26 4 0.02
27 200 0.98
ACGTcount: A:0.37, C:0.22, G:0.08, T:0.33
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:41227742 original size:54 final size:53
Alignment explanation
Indices: 41227643--41227836 Score: 178
Period size: 54 Copynumber: 3.6 Consensus size: 53
41227633 ATTACCGTTT
* *** * * **
41227643 TACCCTTGATTTACAGAATTACCATTTTACACTCGATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAATAC-CCCAATTTGTAAAATTACTAAAA
* *
41227697 TACCCTTGATTTACAAAATTACCAAAATACCCCTAGTTTGTAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAATACCCC-AATTTGTAAAATTACTAAAA
* * * *
41227751 TACCATTGGTTTGA-GAAATTACCGAAATACCACCAATTTGTAAAATTA-TCAAAA
1 TACCCTTGATTT-ACAAAATTACCAAAATACC-CCAATTTGTAAAATTACT-AAAA
*
41227805 TACCCCTGATTTACAAAATTA-CAGAAATACCC
1 TACCCTTGATTTACAAAATTACCA-AAATACCC
41227837 TTGACTTTTT
Statistics
Matches: 113, Mismatches: 21, Indels: 13
0.77 0.14 0.09
Matches are distributed among these distances:
53 5 0.04
54 105 0.93
55 3 0.03
ACGTcount: A:0.41, C:0.21, G:0.07, T:0.30
Consensus pattern (53 bp):
TACCCTTGATTTACAAAATTACCAAAATACCCCAATTTGTAAAATTACTAAAA
Found at i:41227890 original size:27 final size:27
Alignment explanation
Indices: 41227679--41227900 Score: 121
Period size: 27 Copynumber: 8.1 Consensus size: 27
41227669 TTACACTCGA
* *
41227679 TTTACAAAATTACTAAAATACCCTTGA
1 TTTATAAAATTACTAAAATACCCTTGG
* * * *
41227706 TTTACAAAATTACCAAAATACCCCTAG
1 TTTATAAAATTACTAAAATACCCTTGG
* * *
41227733 TTTGTAAAATTACCAAAATACCATTGG
1 TTTATAAAATTACTAAAATACCCTTGG
* ** ***
41227760 TTTGA-GAAATTACCGAAATACCAC-CAA
1 TTT-ATAAAATTACTAAAATACC-CTTGG
* * *
41227787 TTTGTAAAATTA-TCAAAATACCCCTGA
1 TTTATAAAATTACT-AAAATACCCTTGG
* *
41227814 TTTACAAAATTAC-AGAAATACCCTTGACT
1 TTTATAAAATTACTA-AAATACCCTTG--G
* * *
41227843 TTTTTAAAAATTA-TAGGAATACCATTGG
1 TTTAT-AAAATTACTA-AAATACCCTTGG
*
41227871 TTTATAAAATTACTGAAATACCCTTGG
1 TTTATAAAATTACTAAAATACCCTTGG
41227898 TTT
1 TTT
41227901 GTTGATTTAC
Statistics
Matches: 148, Mismatches: 35, Indels: 24
0.71 0.17 0.12
Matches are distributed among these distances:
26 2 0.01
27 120 0.81
28 5 0.03
29 3 0.02
30 18 0.12
ACGTcount: A:0.41, C:0.18, G:0.09, T:0.33
Consensus pattern (27 bp):
TTTATAAAATTACTAAAATACCCTTGG
Found at i:41228018 original size:27 final size:27
Alignment explanation
Indices: 41227945--41228018 Score: 71
Period size: 27 Copynumber: 2.7 Consensus size: 27
41227935 GACTAAAAAA
*
41227945 CCCCTAATA-GGTAAAAAGACCGTAAAG
1 CCCCT-ATAGGGTAAAATGACCGTAAAG
**
41227972 CCCCTATAGGGTAATGTGACCGTAATA-
1 CCCCTATAGGGTAAAATGACCGTAA-AG
* *
41227999 CCCCTGTATGGTAAAATGAC
1 CCCCTATAGGGTAAAATGAC
41228019 GAATATGCCC
Statistics
Matches: 38, Mismatches: 7, Indels: 4
0.78 0.14 0.08
Matches are distributed among these distances:
26 3 0.08
27 34 0.89
28 1 0.03
ACGTcount: A:0.35, C:0.23, G:0.20, T:0.22
Consensus pattern (27 bp):
CCCCTATAGGGTAAAATGACCGTAAAG
Found at i:41228866 original size:25 final size:25
Alignment explanation
Indices: 41228828--41228922 Score: 120
Period size: 25 Copynumber: 3.8 Consensus size: 25
41228818 AGGAAGTGCT
*
41228828 AAAAGGGCTATGCCCCAGTTTACTG
1 AAAAGGGCTTTGCCCCAGTTTACTG
* *
41228853 AAAAGGGCTTTGCCCTAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTACTG
* *
41228878 AAAAGGGCTTTGCCTCAGTTTA-TCA
1 AAAAGGGCTTTGCCCCAGTTTACT-G
*
41228903 AAAAGGACTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
41228923 ATTAAAATAG
Statistics
Matches: 60, Mismatches: 9, Indels: 2
0.85 0.13 0.03
Matches are distributed among these distances:
25 60 1.00
ACGTcount: A:0.27, C:0.23, G:0.22, T:0.27
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTACTG
Found at i:41229177 original size:31 final size:31
Alignment explanation
Indices: 41229142--41229220 Score: 149
Period size: 31 Copynumber: 2.5 Consensus size: 31
41229132 CATTTACAGT
*
41229142 AAAGGCTTCGACCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
41229173 AAAGGCTTCGGCCCAGTGATATGATTTATGA
1 AAAGGCTTCGGCCCAGTGATATGATTTATGA
41229204 AAAGGCTTCGGCCCAGT
1 AAAGGCTTCGGCCCAGT
41229221 AACCGTTAAA
Statistics
Matches: 47, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
31 47 1.00
ACGTcount: A:0.29, C:0.19, G:0.25, T:0.27
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAGTGATATGATTTATGA
Found at i:41230392 original size:30 final size:30
Alignment explanation
Indices: 41230357--41230414 Score: 82
Period size: 30 Copynumber: 1.9 Consensus size: 30
41230347 AACGGCCATA
41230357 ACACACGGACGTGTAG-TCTACCCGTGTGTC
1 ACACACGGACGTGTAGATC-ACCCGTGTGTC
* *
41230387 ACACACGGGCGTGTGGATCACCCGTGTG
1 ACACACGGACGTGTAGATCACCCGTGTG
41230415 GAAGTGCCTA
Statistics
Matches: 25, Mismatches: 2, Indels: 2
0.86 0.07 0.07
Matches are distributed among these distances:
30 23 0.92
31 2 0.08
ACGTcount: A:0.19, C:0.29, G:0.31, T:0.21
Consensus pattern (30 bp):
ACACACGGACGTGTAGATCACCCGTGTGTC
Found at i:41235611 original size:13 final size:13
Alignment explanation
Indices: 41235593--41235624 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
41235583 ATATTAATTT
41235593 AATAAAATAAATA
1 AATAAAATAAATA
41235606 AATAAAATAAATA
1 AATAAAATAAATA
41235619 AATAAA
1 AATAAA
41235625 GACAAATGTG
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.78, C:0.00, G:0.00, T:0.22
Consensus pattern (13 bp):
AATAAAATAAATA
Found at i:41235768 original size:16 final size:16
Alignment explanation
Indices: 41235720--41235773 Score: 60
Period size: 16 Copynumber: 3.5 Consensus size: 16
41235710 ATTTACTATT
41235720 TATAA-AAGATATTTA
1 TATAATAAGATATTTA
*
41235735 T-TAATTAAG-TAATTA
1 TATAA-TAAGATATTTA
*
41235750 TATTATAAGATATTTA
1 TATAATAAGATATTTA
41235766 TATAATAA
1 TATAATAA
41235774 ATAAATTTAA
Statistics
Matches: 31, Mismatches: 4, Indels: 7
0.74 0.10 0.17
Matches are distributed among these distances:
14 3 0.10
15 11 0.35
16 17 0.55
ACGTcount: A:0.50, C:0.00, G:0.06, T:0.44
Consensus pattern (16 bp):
TATAATAAGATATTTA
Found at i:41236416 original size:19 final size:20
Alignment explanation
Indices: 41236380--41236417 Score: 60
Period size: 20 Copynumber: 1.9 Consensus size: 20
41236370 AATTAAAATA
41236380 TATTGAATTGAGAATATATC
1 TATTGAATTGAGAATATATC
*
41236400 TATTTAATTGA-AATATAT
1 TATTGAATTGAGAATATAT
41236418 ACTGATGAAA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
19 7 0.41
20 10 0.59
ACGTcount: A:0.42, C:0.03, G:0.11, T:0.45
Consensus pattern (20 bp):
TATTGAATTGAGAATATATC
Found at i:41236782 original size:18 final size:18
Alignment explanation
Indices: 41236759--41236910 Score: 135
Period size: 18 Copynumber: 8.4 Consensus size: 18
41236749 TAAATAAAGG
* * *
41236759 TACTGAATAACTAATTGC
1 TACTGAATAACTGACTGT
* * *
41236777 TACTGAATAATTAACTCT
1 TACTGAATAACTGACTGT
*
41236795 TACTGAATAAATGACTGT
1 TACTGAATAACTGACTGT
* * *
41236813 TACTAAATAACTGATTAT
1 TACTGAATAACTGACTGT
*
41236831 TACTGAATAATTGACTGT
1 TACTGAATAACTGACTGT
* * *
41236849 TATTGAATAAATGATTGT
1 TACTGAATAACTGACTGT
*
41236867 TACTGAATAACCGACTGT
1 TACTGAATAACTGACTGT
* *
41236885 TACTGAACAATTGA-TCGT
1 TACTGAATAACTGACT-GT
41236903 TACTGAAT
1 TACTGAAT
41236911 GATATTGATA
Statistics
Matches: 107, Mismatches: 26, Indels: 2
0.79 0.19 0.01
Matches are distributed among these distances:
17 1 0.01
18 106 0.99
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (18 bp):
TACTGAATAACTGACTGT
Found at i:41236822 original size:36 final size:36
Alignment explanation
Indices: 41236759--41236910 Score: 153
Period size: 36 Copynumber: 4.2 Consensus size: 36
41236749 TAAATAAAGG
* * * * *
41236759 TACTGAATAACTAATTGCTACTGAATAATTAACTCT
1 TACTGAATAACTGACTGTTACTGAATAATTGATTCT
* * * *
41236795 TACTGAATAAATGACTGTTACTAAATAACTGATTAT
1 TACTGAATAACTGACTGTTACTGAATAATTGATTCT
* * * *
41236831 TACTGAATAATTGACTGTTATTGAATAAATGATTGT
1 TACTGAATAACTGACTGTTACTGAATAATTGATTCT
* *
41236867 TACTGAATAACCGACTGTTACTGAACAATTGA-TCGT
1 TACTGAATAACTGACTGTTACTGAATAATTGATTC-T
41236903 TACTGAAT
1 TACTGAAT
41236911 GATATTGATA
Statistics
Matches: 95, Mismatches: 20, Indels: 2
0.81 0.17 0.02
Matches are distributed among these distances:
35 1 0.01
36 94 0.99
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (36 bp):
TACTGAATAACTGACTGTTACTGAATAATTGATTCT
Found at i:41236835 original size:54 final size:54
Alignment explanation
Indices: 41236759--41236910 Score: 189
Period size: 54 Copynumber: 2.8 Consensus size: 54
41236749 TAAATAAAGG
* * *
41236759 TACTGAATAACTAATTGCTACTGAATAATTAACTCTTACTGAATAAATGACTGT
1 TACTGAATAACTGATTGTTACTGAATAATTGACTCTTACTGAATAAATGACTGT
* * * * *
41236813 TACTAAATAACTGATTATTACTGAATAATTGACTGTTATTGAATAAATGATTGT
1 TACTGAATAACTGATTGTTACTGAATAATTGACTCTTACTGAATAAATGACTGT
* * *
41236867 TACTGAATAACCGACTGTTACTGAACAATTGA-TCGTTACTGAAT
1 TACTGAATAACTGATTGTTACTGAATAATTGACTC-TTACTGAAT
41236911 GATATTGATA
Statistics
Matches: 82, Mismatches: 15, Indels: 2
0.83 0.15 0.02
Matches are distributed among these distances:
53 1 0.01
54 81 0.99
ACGTcount: A:0.38, C:0.13, G:0.13, T:0.36
Consensus pattern (54 bp):
TACTGAATAACTGATTGTTACTGAATAATTGACTCTTACTGAATAAATGACTGT
Found at i:41246933 original size:5 final size:5
Alignment explanation
Indices: 41246923--41246977 Score: 53
Period size: 6 Copynumber: 10.8 Consensus size: 5
41246913 TACAGTGCAT
41246923 AATAA AAT-A AAT-A AATAA AATCAA AATCAA AATCAA AATCAA AAT-A
1 AATAA AATAA AATAA AATAA AAT-AA AAT-AA AAT-AA AAT-AA AATAA
41246969 AATAA AATA
1 AATAA AATA
41246978 TAAAACGAAA
Statistics
Matches: 47, Mismatches: 0, Indels: 6
0.89 0.00 0.11
Matches are distributed among these distances:
4 12 0.26
5 12 0.26
6 23 0.49
ACGTcount: A:0.73, C:0.07, G:0.00, T:0.20
Consensus pattern (5 bp):
AATAA
Found at i:41246950 original size:6 final size:6
Alignment explanation
Indices: 41246935--41246967 Score: 59
Period size: 6 Copynumber: 5.7 Consensus size: 6
41246925 TAAAATAAAT
41246935 AAAT-A AAATCA AAATCA AAATCA AAATCA AAAT
1 AAATCA AAATCA AAATCA AAATCA AAATCA AAAT
41246968 AAATAAAATA
Statistics
Matches: 27, Mismatches: 0, Indels: 1
0.96 0.00 0.04
Matches are distributed among these distances:
5 4 0.15
6 23 0.85
ACGTcount: A:0.70, C:0.12, G:0.00, T:0.18
Consensus pattern (6 bp):
AAATCA
Found at i:41250106 original size:50 final size:52
Alignment explanation
Indices: 41250041--41250180 Score: 178
Period size: 50 Copynumber: 2.8 Consensus size: 52
41250031 ACCGAAGCTC
* * *
41250041 TCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGA-CCTA-TCAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTCAA
* * * *
41250091 TCTGGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAA
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTCAA
* *
41250143 T-GGGTACACATCGTAGCCTGCACTTAGTACTACACACG
1 TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACG
41250181 TGACTCACAA
Statistics
Matches: 78, Mismatches: 10, Indels: 3
0.86 0.11 0.03
Matches are distributed among these distances:
50 38 0.49
51 36 0.46
52 4 0.05
ACGTcount: A:0.28, C:0.26, G:0.20, T:0.26
Consensus pattern (52 bp):
TCTGGTACACATAGTAGCCTGCACTTAGTACTACACACGCGATCCAAGTCAA
Found at i:41250170 original size:51 final size:50
Alignment explanation
Indices: 41250044--41250184 Score: 176
Period size: 51 Copynumber: 2.8 Consensus size: 50
41250034 GAAGCTCTCT
* * * * *
41250044 GGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACCTATCAATCT
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATCAATCG
* * *
41250094 GGTACACGTAGTAGCCTGCACTTAGTACTACACACGTGATCGAAGTTAAT-G
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGA-CCAA-TCAATCG
*
41250145 GGTACACATCGTAGCCTGCACTTAGTACTACACACGTGAC
1 GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGAC
41250185 TCACAACGGA
Statistics
Matches: 79, Mismatches: 10, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
50 36 0.46
51 39 0.49
52 4 0.05
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (50 bp):
GGTACACATAGTAGCCTGCACTTAGTACTACACACGTGACCAATCAATCG
Found at i:41252554 original size:10 final size:11
Alignment explanation
Indices: 41252530--41252554 Score: 50
Period size: 11 Copynumber: 2.3 Consensus size: 11
41252520 TGCTTGCTAA
41252530 TTTTTCAATGT
1 TTTTTCAATGT
41252541 TTTTTCAATGT
1 TTTTTCAATGT
41252552 TTT
1 TTT
41252555 AAAATCGAGT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
11 14 1.00
ACGTcount: A:0.16, C:0.08, G:0.08, T:0.68
Consensus pattern (11 bp):
TTTTTCAATGT
Found at i:41262559 original size:13 final size:13
Alignment explanation
Indices: 41262541--41262572 Score: 64
Period size: 13 Copynumber: 2.5 Consensus size: 13
41262531 TTCATCATTT
41262541 AGGCCAACTTATA
1 AGGCCAACTTATA
41262554 AGGCCAACTTATA
1 AGGCCAACTTATA
41262567 AGGCCA
1 AGGCCA
41262573 TGCATACCAA
Statistics
Matches: 19, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 19 1.00
ACGTcount: A:0.38, C:0.25, G:0.19, T:0.19
Consensus pattern (13 bp):
AGGCCAACTTATA
Found at i:41262688 original size:24 final size:24
Alignment explanation
Indices: 41262631--41262678 Score: 87
Period size: 24 Copynumber: 2.0 Consensus size: 24
41262621 ACAAAGTATA
*
41262631 CCAAAATACCTTTAGCTTATACAT
1 CCAAAATACCTCTAGCTTATACAT
41262655 CCAAAATACCTCTAGCTTATACAT
1 CCAAAATACCTCTAGCTTATACAT
41262679 GCCATATACC
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
24 23 1.00
ACGTcount: A:0.38, C:0.27, G:0.04, T:0.31
Consensus pattern (24 bp):
CCAAAATACCTCTAGCTTATACAT
Found at i:41265336 original size:28 final size:28
Alignment explanation
Indices: 41265277--41265396 Score: 143
Period size: 28 Copynumber: 4.2 Consensus size: 28
41265267 ATCCATACTT
* * *
41265277 ATTCATTTGGCCCATTTAGGCCCAATCTC
1 ATTCATATGGCCCA-TCAGGCCCAATCAC
*
41265306 ATTCATGTGGCCCATC-GAGCCCAATCAC
1 ATTCATATGGCCCATCAG-GCCCAATCAC
*
41265334 ATTCATATGGCCCATCAGACCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
* *
41265362 TTTCATATGGCCCGTCAGGCCCAATCAC
1 ATTCATATGGCCCATCAGGCCCAATCAC
*
41265390 ACTCATA
1 ATTCATA
41265397 GTCATGCAAT
Statistics
Matches: 79, Mismatches: 10, Indels: 5
0.84 0.11 0.05
Matches are distributed among these distances:
27 1 0.01
28 64 0.81
29 14 0.18
ACGTcount: A:0.26, C:0.34, G:0.14, T:0.26
Consensus pattern (28 bp):
ATTCATATGGCCCATCAGGCCCAATCAC
Found at i:41265634 original size:16 final size:16
Alignment explanation
Indices: 41265613--41265646 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
41265603 CCAAACTTCT
**
41265613 GGCTTTTCGGCATTTC
1 GGCTTTTCAACATTTC
41265629 GGCTTTTCAACATTTC
1 GGCTTTTCAACATTTC
41265645 GG
1 GG
41265647 GATTTACCGA
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:0.12, C:0.24, G:0.24, T:0.41
Consensus pattern (16 bp):
GGCTTTTCAACATTTC
Found at i:41277761 original size:19 final size:20
Alignment explanation
Indices: 41277734--41277778 Score: 58
Period size: 19 Copynumber: 2.4 Consensus size: 20
41277724 CAAGTCATTA
*
41277734 TCATTTCATCTCAAGA-TTT
1 TCATGTCATCTCAAGAGTTT
*
41277753 TCATGTCATGTCAAGAGTTT
1 TCATGTCATCTCAAGAGTTT
41277773 T-ATGTC
1 TCATGTC
41277779 CGTTGAATCA
Statistics
Matches: 23, Mismatches: 2, Indels: 2
0.85 0.07 0.07
Matches are distributed among these distances:
19 19 0.83
20 4 0.17
ACGTcount: A:0.24, C:0.18, G:0.13, T:0.44
Consensus pattern (20 bp):
TCATGTCATCTCAAGAGTTT
Found at i:41280698 original size:14 final size:14
Alignment explanation
Indices: 41280665--41280723 Score: 52
Period size: 14 Copynumber: 4.2 Consensus size: 14
41280655 CTCCTTAGTC
41280665 TTTTATTATTTTAT
1 TTTTATTATTTTAT
*
41280679 TGTTATTATTTT-T
1 TTTTATTATTTTAT
*
41280692 TCTTTATTACTATTA-
1 T-TTTATTA-TTTTAT
41280707 TTTTATT-TTATTAT
1 TTTTATTATT-TTAT
41280721 TTT
1 TTT
41280724 CATTGTTTTT
Statistics
Matches: 36, Mismatches: 4, Indels: 10
0.72 0.08 0.20
Matches are distributed among these distances:
12 1 0.03
13 5 0.14
14 26 0.72
15 4 0.11
ACGTcount: A:0.20, C:0.03, G:0.02, T:0.75
Consensus pattern (14 bp):
TTTTATTATTTTAT
Found at i:41280764 original size:18 final size:17
Alignment explanation
Indices: 41280741--41280774 Score: 59
Period size: 18 Copynumber: 1.9 Consensus size: 17
41280731 TTTACTTGTT
41280741 TCTTTAATTATCTTTAAG
1 TCTTTAATT-TCTTTAAG
41280759 TCTTTAATTTCTTTAA
1 TCTTTAATTTCTTTAA
41280775 TATGATTTTG
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
17 7 0.44
18 9 0.56
ACGTcount: A:0.26, C:0.12, G:0.03, T:0.59
Consensus pattern (17 bp):
TCTTTAATTTCTTTAAG
Found at i:41282436 original size:12 final size:12
Alignment explanation
Indices: 41282400--41282460 Score: 74
Period size: 12 Copynumber: 5.2 Consensus size: 12
41282390 AGTCCATTCA
*
41282400 TTTTA-TTTTAT
1 TTTTAGTTTTAG
41282411 TTTTA-TTTTAAG
1 TTTTAGTTTT-AG
41282423 TTTTAGTTTTAG
1 TTTTAGTTTTAG
41282435 TTTTAGTTTTAG
1 TTTTAGTTTTAG
*
41282447 ATTTAGTTTT-G
1 TTTTAGTTTTAG
41282458 TTT
1 TTT
41282461 CTATTTTTAT
Statistics
Matches: 45, Mismatches: 3, Indels: 4
0.87 0.06 0.08
Matches are distributed among these distances:
11 12 0.27
12 29 0.64
13 4 0.09
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.70
Consensus pattern (12 bp):
TTTTAGTTTTAG
Found at i:41282469 original size:18 final size:18
Alignment explanation
Indices: 41282400--41282460 Score: 74
Period size: 18 Copynumber: 3.5 Consensus size: 18
41282390 AGTCCATTCA
*
41282400 TTTTA-TTTTATTTTTA-
1 TTTTAGTTTTAGTTTTAG
41282416 TTTTAAGTTTTAGTTTTAG
1 TTTT-AGTTTTAGTTTTAG
*
41282435 TTTTAGTTTTAGATTTAG
1 TTTTAGTTTTAGTTTTAG
41282453 TTTT-GTTT
1 TTTTAGTTT
41282461 CTATTTTTAT
Statistics
Matches: 40, Mismatches: 2, Indels: 5
0.85 0.04 0.11
Matches are distributed among these distances:
16 4 0.10
17 5 0.12
18 27 0.68
19 4 0.10
ACGTcount: A:0.18, C:0.00, G:0.11, T:0.70
Consensus pattern (18 bp):
TTTTAGTTTTAGTTTTAG
Found at i:41290326 original size:39 final size:39
Alignment explanation
Indices: 41290278--41290368 Score: 146
Period size: 39 Copynumber: 2.3 Consensus size: 39
41290268 TGAAAATAAG
* *
41290278 AATATGTAATAATAAGAGAAATAATAAATAGCTGAAATC
1 AATAAGTAATAATAAGAGAAATAATAAAGAGCTGAAATC
*
41290317 AATACGTAATAATAAGAGAAATAATAAAGAGCTGAAATC
1 AATAAGTAATAATAAGAGAAATAATAAAGAGCTGAAATC
41290356 AATAAAGTAATAA
1 AAT-AAGTAATAA
41290369 ATGGAAAAAA
Statistics
Matches: 48, Mismatches: 3, Indels: 1
0.92 0.06 0.02
Matches are distributed among these distances:
39 40 0.83
40 8 0.17
ACGTcount: A:0.58, C:0.05, G:0.13, T:0.23
Consensus pattern (39 bp):
AATAAGTAATAATAAGAGAAATAATAAAGAGCTGAAATC
Found at i:41296689 original size:15 final size:17
Alignment explanation
Indices: 41296659--41296690 Score: 50
Period size: 15 Copynumber: 2.0 Consensus size: 17
41296649 TTGATACTTG
41296659 TGAATGTGAGTTTGGTA
1 TGAATGTGAGTTTGGTA
41296676 TGAAT-TGA-TTTGGTA
1 TGAATGTGAGTTTGGTA
41296691 AATTATGCTA
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
15 7 0.47
16 3 0.20
17 5 0.33
ACGTcount: A:0.25, C:0.00, G:0.31, T:0.44
Consensus pattern (17 bp):
TGAATGTGAGTTTGGTA
Found at i:41303905 original size:36 final size:36
Alignment explanation
Indices: 41303849--41303927 Score: 140
Period size: 36 Copynumber: 2.2 Consensus size: 36
41303839 CGAAGAAACA
41303849 AAATGTACTATAAGAACAATCTTTCATCACAAAATAT
1 AAAT-TACTATAAGAACAATCTTTCATCACAAAATAT
*
41303886 AAATTACTATAAGAGCAATCTTTCATCACAAAATAT
1 AAATTACTATAAGAACAATCTTTCATCACAAAATAT
41303922 AAATTA
1 AAATTA
41303928 ATACATAGTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
36 37 0.90
37 4 0.10
ACGTcount: A:0.49, C:0.15, G:0.05, T:0.30
Consensus pattern (36 bp):
AAATTACTATAAGAACAATCTTTCATCACAAAATAT
Found at i:41304495 original size:21 final size:19
Alignment explanation
Indices: 41304454--41304490 Score: 65
Period size: 19 Copynumber: 1.9 Consensus size: 19
41304444 GGTTTTGAAA
*
41304454 AAGTGTTTTTAAGACAAAT
1 AAGTGTTTTTAAGAAAAAT
41304473 AAGTGTTTTTAAGAAAAA
1 AAGTGTTTTTAAGAAAAA
41304491 AATAATAAGT
Statistics
Matches: 17, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.46, C:0.03, G:0.16, T:0.35
Consensus pattern (19 bp):
AAGTGTTTTTAAGAAAAAT
Found at i:41306812 original size:22 final size:22
Alignment explanation
Indices: 41306786--41306837 Score: 70
Period size: 22 Copynumber: 2.4 Consensus size: 22
41306776 CTAGTGCGCT
41306786 CCTCTGTTTAGCACATTT-GTGC
1 CCTCTGTTTAGCAC-TTTAGTGC
* *
41306808 TCTCTGTATAGCACTTTAGTGC
1 CCTCTGTTTAGCACTTTAGTGC
41306830 CCTCTGTT
1 CCTCTGTT
41306838 CAATAGTGCA
Statistics
Matches: 25, Mismatches: 4, Indels: 2
0.81 0.13 0.06
Matches are distributed among these distances:
21 3 0.12
22 22 0.88
ACGTcount: A:0.13, C:0.27, G:0.17, T:0.42
Consensus pattern (22 bp):
CCTCTGTTTAGCACTTTAGTGC
Found at i:41307470 original size:29 final size:29
Alignment explanation
Indices: 41307435--41307492 Score: 116
Period size: 29 Copynumber: 2.0 Consensus size: 29
41307425 TATAAATGTT
41307435 CAAATATATTAGTGATTAGCCAAAATCAC
1 CAAATATATTAGTGATTAGCCAAAATCAC
41307464 CAAATATATTAGTGATTAGCCAAAATCAC
1 CAAATATATTAGTGATTAGCCAAAATCAC
41307493 TTTGGCACCA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
29 29 1.00
ACGTcount: A:0.45, C:0.17, G:0.10, T:0.28
Consensus pattern (29 bp):
CAAATATATTAGTGATTAGCCAAAATCAC
Found at i:41308050 original size:23 final size:23
Alignment explanation
Indices: 41308018--41308069 Score: 95
Period size: 23 Copynumber: 2.3 Consensus size: 23
41308008 TGCACTGGCA
41308018 TTTTAGTATAATCAAGTAATTCG
1 TTTTAGTATAATCAAGTAATTCG
*
41308041 TTTTATTATAATCAAGTAATTCG
1 TTTTAGTATAATCAAGTAATTCG
41308064 TTTTAG
1 TTTTAG
41308070 CTTAAATGGG
Statistics
Matches: 27, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 27 1.00
ACGTcount: A:0.33, C:0.08, G:0.12, T:0.48
Consensus pattern (23 bp):
TTTTAGTATAATCAAGTAATTCG
Found at i:41314736 original size:63 final size:63
Alignment explanation
Indices: 41314606--41314777 Score: 193
Period size: 63 Copynumber: 2.7 Consensus size: 63
41314596 GCTTATGAAA
* * * * **
41314606 AAAATAAATAGATGATGGTTGTGTCGGTGTA-TGAATGATTGCACATGTTGTGATGCTTGTGT
1 AAAATAAATTGGTGATGGATGTGTCGGTGTAGGGAATGATTGCACATGCAGTGATGCTTGTGT
* * * *
41314668 GAAATAAATTGGTGATGGATATGTCGGTGTAGGGAATGATTGCGCGTGCAGTGATGCTTGTGT
1 AAAATAAATTGGTGATGGATGTGTCGGTGTAGGGAATGATTGCACATGCAGTGATGCTTGTGT
* * * * * *
41314731 AAAATAAACTAGTGATTGCTGTGTTGTTGTAGGGAATGATTGCACAT
1 AAAATAAATTGGTGATGGATGTGTCGGTGTAGGGAATGATTGCACAT
41314778 AATGTTGTGT
Statistics
Matches: 89, Mismatches: 20, Indels: 1
0.81 0.18 0.01
Matches are distributed among these distances:
62 26 0.29
63 63 0.71
ACGTcount: A:0.27, C:0.08, G:0.31, T:0.34
Consensus pattern (63 bp):
AAAATAAATTGGTGATGGATGTGTCGGTGTAGGGAATGATTGCACATGCAGTGATGCTTGTGT
Found at i:41317610 original size:25 final size:25
Alignment explanation
Indices: 41317581--41317631 Score: 66
Period size: 25 Copynumber: 2.0 Consensus size: 25
41317571 AAGAATAATT
**
41317581 TGAATATTTGATATTGCCTAATAAA
1 TGAATATTCAATATTGCCTAATAAA
* *
41317606 TGAATATTCAATATTGCTTAGTAAA
1 TGAATATTCAATATTGCCTAATAAA
41317631 T
1 T
41317632 TTCAAGCGAA
Statistics
Matches: 22, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 22 1.00
ACGTcount: A:0.39, C:0.08, G:0.12, T:0.41
Consensus pattern (25 bp):
TGAATATTCAATATTGCCTAATAAA
Found at i:41318987 original size:28 final size:28
Alignment explanation
Indices: 41318956--41319010 Score: 74
Period size: 28 Copynumber: 2.0 Consensus size: 28
41318946 TGGAATTGGG
* * *
41318956 AATTTAGAATAATAAATCGAGAATTGAC
1 AATTGAGAATAACAAATCGAAAATTGAC
*
41318984 AATTGAGAATAACAAATTGAAAATTGA
1 AATTGAGAATAACAAATCGAAAATTGA
41319011 GAATCAAATT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 23 1.00
ACGTcount: A:0.53, C:0.05, G:0.15, T:0.27
Consensus pattern (28 bp):
AATTGAGAATAACAAATCGAAAATTGAC
Found at i:41319003 original size:21 final size:19
Alignment explanation
Indices: 41318977--41319033 Score: 69
Period size: 21 Copynumber: 2.8 Consensus size: 19
41318967 ATAAATCGAG
*
41318977 AATTGACAATTGAGAATAACA
1 AATTGAAAATTGAGAAT--CA
41318998 AATTGAAAATTGAGAATCA
1 AATTGAAAATTGAGAATCA
41319017 AATTGTGAAAATTGAGA
1 AA-T-TGAAAATTGAGA
41319034 GTTGAATTGA
Statistics
Matches: 33, Mismatches: 1, Indels: 4
0.87 0.03 0.11
Matches are distributed among these distances:
19 4 0.12
20 1 0.03
21 28 0.85
ACGTcount: A:0.51, C:0.05, G:0.18, T:0.26
Consensus pattern (19 bp):
AATTGAAAATTGAGAATCA
Done.