Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Dt_chr1
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 96304692
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 2448173 characters in sequence are not A, C, G, or T
File 42 of 313
Found at i:14211580 original size:93 final size:93
Alignment explanation
Indices: 14211468--14211639 Score: 272
Period size: 93 Copynumber: 1.8 Consensus size: 93
14211458 GCCCATAAGT
* * * * *
14211468 GAACTCGGACTCAACTCAACGAGCTCGGGCTTTCGCATCCATAAGTGAACTCAGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTAAACTCAGACTCAACTCAA
14211533 CGAGCTCGGATGCCTAGTTACATCTCTC
66 CGAGCTCGGATGCCTAGTTACATCTCTC
* *
14211561 GAACTCGGACTCAACTCAACGAGTTCAGACATTCACATCCATAAGTAAACTCGGACTCAACTCAA
1 GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTAAACTCAGACTCAACTCAA
*
14211626 CGAGTTCGGATGCC
66 CGAGCTCGGATGCC
14211640 CAAATATCCT
Statistics
Matches: 71, Mismatches: 8, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
93 71 1.00
ACGTcount: A:0.30, C:0.30, G:0.19, T:0.22
Consensus pattern (93 bp):
GAACTCGGACTCAACTCAACGAGCTCAGACATTCACATCCATAAGTAAACTCAGACTCAACTCAA
CGAGCTCGGATGCCTAGTTACATCTCTC
Found at i:14217047 original size:45 final size:46
Alignment explanation
Indices: 14216983--14217087 Score: 185
Period size: 46 Copynumber: 2.3 Consensus size: 46
14216973 TGTAACCCGC
14216983 CCATAAGTGAACTCAGACTCAACT-AACGAGCTCGAGCATTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGAGCATTCGCAT
* *
14217028 CCATAAGTGAACTCGGACTCAACTCAACGAGCTCGAGCGTTCGCAT
1 CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGAGCATTCGCAT
14217074 CCATAAGTGAACTC
1 CCATAAGTGAACTC
14217088 TCACTTGTAT
Statistics
Matches: 57, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
45 23 0.40
46 34 0.60
ACGTcount: A:0.31, C:0.30, G:0.19, T:0.20
Consensus pattern (46 bp):
CCATAAGTGAACTCAGACTCAACTCAACGAGCTCGAGCATTCGCAT
Found at i:14221358 original size:27 final size:27
Alignment explanation
Indices: 14221339--14221483 Score: 227
Period size: 27 Copynumber: 5.4 Consensus size: 27
14221329 ACCCAAATAT
14221339 CCTCGATTTATAGAATTACCGTTTTAC
1 CCTCGATTTATAGAATTACCGTTTTAC
* *
14221366 CCTCGATTTAAAGAATTACTGTTTTAC
1 CCTCGATTTATAGAATTACCGTTTTAC
*
14221393 CCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTATAGAATTACCGTTTTAC
* *
14221420 CCTTGATTTATAGAATTATCGTTTTAC
1 CCTCGATTTATAGAATTACCGTTTTAC
* *
14221447 CCTCAATTTATAGAATTACCGTTTTAT
1 CCTCGATTTATAGAATTACCGTTTTAC
14221474 CCTCGATTTA
1 CCTCGATTTA
14221484 CAAAATACTA
Statistics
Matches: 105, Mismatches: 13, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
27 105 1.00
ACGTcount: A:0.28, C:0.20, G:0.10, T:0.43
Consensus pattern (27 bp):
CCTCGATTTATAGAATTACCGTTTTAC
Found at i:14221403 original size:81 final size:81
Alignment explanation
Indices: 14221318--14221502 Score: 221
Period size: 81 Copynumber: 2.3 Consensus size: 81
14221308 GTACCCCTGG
* *
14221318 TTTATAAAACTACCCA-AATATCCTCGATTTATAGAATTACCGTTTTACCCTCGATTTAAAGAAT
1 TTTATAAAACTA-CCATAATACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTAAAGAAT
*
14221382 TACTGTTTTACCCTCGA
65 TACCGTTTTACCCTCGA
* * ** * * *
14221399 TTTATAGAATTACCATTTTACCCTTGATTTATAGAATTATCGTTTTACCCTCAATTTATAGAATT
1 TTTATAAAACTACCATAATACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTAAAGAATT
*
14221464 ACCGTTTTATCCTCGA
66 ACCGTTTTACCCTCGA
* * *
14221480 TTTACAAAA-TACTAAAATACCCT
1 TTTATAAAACTACCATAATACCCT
14221503 TGGTTTACAA
Statistics
Matches: 86, Mismatches: 17, Indels: 3
0.81 0.16 0.03
Matches are distributed among these distances:
80 13 0.15
81 73 0.85
ACGTcount: A:0.32, C:0.21, G:0.08, T:0.39
Consensus pattern (81 bp):
TTTATAAAACTACCATAATACCCTCGATTTATAGAATTACCGTTTTACCCTCAATTTAAAGAATT
ACCGTTTTACCCTCGA
Found at i:14221529 original size:27 final size:27
Alignment explanation
Indices: 14221480--14221638 Score: 153
Period size: 27 Copynumber: 6.0 Consensus size: 27
14221470 TTATCCTCGA
* * *
14221480 TTTACAAAA-TACTAAAATACCCTTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
14221506 TTTACAAAATTACCAAAATA-CCCTCG
1 TTTATAAAATTACCAAAATACCCCTGG
* *
14221532 ATCAGTAAAATTACCAAAATACCCCTGG
1 TTTA-TAAAATTACCAAAATACCCCTGG
* *
14221560 TTTGTAAAATTACTAAAATACCCCTGG
1 TTTATAAAATTACCAAAATACCCCTGG
* * *
14221587 TTTGTAAAATTACCAAAATACCCTTGA
1 TTTATAAAATTACCAAAATACCCCTGG
* * *
14221614 TTTGTAAAA-TATCGAAATACCCCTG
1 TTTATAAAATTACCAAAATACCCCTG
14221639 TAGGGTAGAA
Statistics
Matches: 113, Mismatches: 17, Indels: 6
0.83 0.12 0.04
Matches are distributed among these distances:
26 28 0.25
27 79 0.70
28 6 0.05
ACGTcount: A:0.40, C:0.21, G:0.09, T:0.30
Consensus pattern (27 bp):
TTTATAAAATTACCAAAATACCCCTGG
Found at i:14221569 original size:54 final size:54
Alignment explanation
Indices: 14221485--14221638 Score: 179
Period size: 54 Copynumber: 2.9 Consensus size: 54
14221475 CTCGATTTAC
* **
14221485 AAAA-TACTAAAATACCCTTGGTTTACAAAATTACCAAAATA-CCCTCGATCAGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCT-GATCAGT
* * * **
14221538 AAAATTACCAAAATACCCCTGGTTTGTAAAATTACTAAAATACCCCTGGTTTGT
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATCAGT
* * *
14221592 AAAATTACCAAAATACCCTTGATTTGTAAAA-TATCGAAATACCCCTG
1 AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTG
14221639 TAGGGTAGAA
Statistics
Matches: 86, Mismatches: 13, Indels: 4
0.83 0.13 0.04
Matches are distributed among these distances:
53 17 0.20
54 65 0.76
55 4 0.05
ACGTcount: A:0.41, C:0.21, G:0.09, T:0.29
Consensus pattern (54 bp):
AAAATTACCAAAATACCCTTGGTTTGTAAAATTACCAAAATACCCCTGATCAGT
Found at i:14221596 original size:81 final size:80
Alignment explanation
Indices: 14221485--14221661 Score: 223
Period size: 81 Copynumber: 2.2 Consensus size: 80
14221475 CTCGATTTAC
*
14221485 AAAA-TACTAAAATACCCTTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATTACCAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAA-TACCAA
**
14221549 AATACCCCTGGT-TTGT
65 AATACCCCT-GTAGGGT
** * ** * *
14221565 AAAATTACTAAAATACCCCTGGTTTGTAAAATTACCAAAATACCCTTGATTTGTAAAATATCGAA
1 AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATACCAAA
14221630 ATACCCCTGTAGGGT
66 ATACCCCTGTAGGGT
*
14221645 AGAATTACTAAAATACC
1 AAAATTACTAAAATACC
14221662 TCTGTAGGGT
Statistics
Matches: 84, Mismatches: 11, Indels: 4
0.85 0.11 0.04
Matches are distributed among these distances:
79 2 0.02
80 35 0.42
81 47 0.56
ACGTcount: A:0.41, C:0.20, G:0.10, T:0.28
Consensus pattern (80 bp):
AAAATTACTAAAATACCCCTGGTTTACAAAATTACCAAAATACCCTCGATCAGTAAAATACCAAA
ATACCCCTGTAGGGT
Found at i:14221658 original size:27 final size:27
Alignment explanation
Indices: 14221627--14221868 Score: 301
Period size: 27 Copynumber: 9.0 Consensus size: 27
14221617 GTAAAATATC
14221627 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
14221654 AAAATACCTCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* *
14221681 GAAATAACCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
*
14221708 GAAATACCCCTGTAAGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
14221735 GAAATACCCCTGTAGGGTAGAATTA-T
1 GAAATACCCCTGTAGGGTAGAATTACT
*
14221761 AGAAATACCCCTATAGGGTAGAATTA-T
1 -GAAATACCCCTGTAGGGTAGAATTACT
* * * *
14221788 AGAAATACCCTTATAGGGTAGAAATACC
1 -GAAATACCCCTGTAGGGTAGAATTACT
*
14221816 GAAATACCCCTGTAGGGTAGAATTACC
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
14221843 GAGATACCCTTGT-GGTGTAAAATTAC
1 GAAATACCCCTGTAGG-GTAGAATTAC
14221869 CATTTTGCCC
Statistics
Matches: 192, Mismatches: 20, Indels: 6
0.88 0.09 0.03
Matches are distributed among these distances:
26 3 0.02
27 189 0.98
ACGTcount: A:0.36, C:0.18, G:0.21, T:0.25
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:14221869 original size:27 final size:27
Alignment explanation
Indices: 14221536--14221869 Score: 275
Period size: 27 Copynumber: 12.4 Consensus size: 27
14221526 CCCTCGATCA
* **
14221536 GTAAAATTACCAAAATACCCCTGGT-TT
1 GTAAAATTACCGAAATACCCCT-GTAGG
** **
14221563 GTAAAATTACTAAAATACCCCTGGT-TT
1 GTAAAATTACCGAAATACCCCT-GTAGG
* * **
14221590 GTAAAATTACCAAAATACCCTTG-ATTT
1 GTAAAATTACCGAAATACCCCTGTA-GG
*
14221617 GTAAAA-TATCGAAATACCCCTGTAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
* ** *
14221643 GTAGAATTACTAAAATACCTCTGTAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
* *
14221670 GTAGAATTACCGAAATAACCCTGTAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
* *
14221697 GTAGAATTACCGAAATACCCCTGTAAG
1 GTAAAATTACCGAAATACCCCTGTAGG
* *
14221724 GTAGAATTACTGAAATACCCCTGTAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
* ** *
14221751 GTAGAATTATAGAAATACCCCTATAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
* ** * *
14221778 GTAGAATTATAGAAATACCCTTATAGG
1 GTAAAATTACCGAAATACCCCTGTAGG
14221805 GTAGAAA-TACCGAAATACCCCTGTAGG
1 GTA-AAATTACCGAAATACCCCTGTAGG
* * *
14221832 GTAGAATTACCGAGATACCCTTGT-GG
1 GTAAAATTACCGAAATACCCCTGTAGG
14221858 TGTAAAATTACC
1 -GTAAAATTACC
14221870 ATTTTGCCCC
Statistics
Matches: 266, Mismatches: 34, Indels: 14
0.85 0.11 0.04
Matches are distributed among these distances:
26 23 0.09
27 241 0.91
28 2 0.01
ACGTcount: A:0.37, C:0.18, G:0.18, T:0.27
Consensus pattern (27 bp):
GTAAAATTACCGAAATACCCCTGTAGG
Found at i:14222148 original size:24 final size:25
Alignment explanation
Indices: 14222072--14222141 Score: 104
Period size: 25 Copynumber: 2.8 Consensus size: 25
14222062 AGGAAGTGCT
* * * *
14222072 AAAAGGGCTATGCCCAAGTTTACCG
1 AAAAGGGCTTTGCCCCAGTTTATCA
14222097 AAAAGGGCTTTGCCCCAGTTTATCA
1 AAAAGGGCTTTGCCCCAGTTTATCA
14222122 AAAAGGGCTTTGCCCCAGTT
1 AAAAGGGCTTTGCCCCAGTT
14222142 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:0.29, C:0.24, G:0.23, T:0.24
Consensus pattern (25 bp):
AAAAGGGCTTTGCCCCAGTTTATCA
Found at i:14222154 original size:24 final size:24
Alignment explanation
Indices: 14222097--14222168 Score: 76
Period size: 25 Copynumber: 3.0 Consensus size: 24
14222087 AAGTTTACCG
14222097 AAAAG-GGCTTTGCCCCAGTTTATC
1 AAAAGAGGCTTTGCCCCAG-TTATC
*
14222121 AAAA-AGGGCTTTGCCCCAGTTATT
1 AAAAGA-GGCTTTGCCCCAGTTATC
**
14222145 AAAAGAGGCTAGGCCTCCAGTTAT
1 AAAAGAGGCTTTGCC-CCAGTTAT
14222169 ATGATAAAGC
Statistics
Matches: 41, Mismatches: 3, Indels: 7
0.80 0.06 0.14
Matches are distributed among these distances:
24 19 0.46
25 22 0.54
ACGTcount: A:0.29, C:0.22, G:0.22, T:0.26
Consensus pattern (24 bp):
AAAAGAGGCTTTGCCCCAGTTATC
Found at i:14222433 original size:31 final size:31
Alignment explanation
Indices: 14222362--14222436 Score: 123
Period size: 31 Copynumber: 2.4 Consensus size: 31
14222352 CGTTTACAGT
* *
14222362 AAAGGCTTCAGCCCAATGATATGATTTATGA
1 AAAGGCTTCGGCCCAACGATATGATTTATGA
*
14222393 AAAGGCTTCGGCCCAGCGATATGATTTATGA
1 AAAGGCTTCGGCCCAACGATATGATTTATGA
14222424 AAAGGCTTCGGCC
1 AAAGGCTTCGGCC
14222437 TAGTAACCAT
Statistics
Matches: 41, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 41 1.00
ACGTcount: A:0.31, C:0.20, G:0.24, T:0.25
Consensus pattern (31 bp):
AAAGGCTTCGGCCCAACGATATGATTTATGA
Found at i:14224763 original size:27 final size:28
Alignment explanation
Indices: 14224714--14224871 Score: 119
Period size: 27 Copynumber: 5.8 Consensus size: 28
14224704 ATTACCAACG
* * * *
14224714 TACCCCCGGTTTATAAAACTACCCA-AA
1 TACCCTCGATTTATAGAATTACCCATAA
* **
14224741 TATCCTCGATTTATAGAATTA-CCATTT
1 TACCCTCGATTTATAGAATTACCCATAA
* **
14224768 TACCCTCGATTTATAGAATTA-CTATTT
1 TACCCTCGATTTATAGAATTACCCATAA
* **
14224795 TACCCTCAATTTATAGAATTA-CCATTT
1 TACCCTCGATTTATAGAATTACCCATAA
* * **
14224822 TACCCTTGATTTATAGAATTA-TCATTT
1 TACCCTCGATTTATAGAATTACCCATAA
*
14224849 TACCCTCGATTTACAGAATTACC
1 TACCCTCGATTTATAGAATTACC
14224872 GTTTTACCCT
Statistics
Matches: 112, Mismatches: 17, Indels: 3
0.85 0.13 0.02
Matches are distributed among these distances:
26 3 0.03
27 109 0.97
ACGTcount: A:0.32, C:0.23, G:0.07, T:0.39
Consensus pattern (28 bp):
TACCCTCGATTTATAGAATTACCCATAA
Found at i:14224772 original size:54 final size:54
Alignment explanation
Indices: 14224714--14224880 Score: 147
Period size: 54 Copynumber: 3.1 Consensus size: 54
14224704 ATTACCAACG
* * *
14224714 TACCCCCGGTTTATAAAACTACCCA-AATATCCTCGATTTATAGAATTACCATTT
1 TACCCCCGATTTATAAAACTA-CCATAATACCCTCAATTTATAGAATTACCATTT
* * * * **
14224768 TACCCTCGATTTATAGAATTACTATTTTACCCTCAATTTATAGAATTACCATTT
1 TACCCCCGATTTATAAAACTACCATAATACCCTCAATTTATAGAATTACCATTT
** * * * ** * * *
14224822 TACCCTTGATTTATAGAATTATCATTTTACCCTCGATTTACAGAATTACCGTTT
1 TACCCCCGATTTATAAAACTACCATAATACCCTCAATTTATAGAATTACCATTT
14224876 TACCC
1 TACCC
14224881 TTAATTTACA
Statistics
Matches: 97, Mismatches: 15, Indels: 2
0.85 0.13 0.02
Matches are distributed among these distances:
53 2 0.02
54 95 0.98
ACGTcount: A:0.31, C:0.23, G:0.07, T:0.39
Consensus pattern (54 bp):
TACCCCCGATTTATAAAACTACCATAATACCCTCAATTTATAGAATTACCATTT
Found at i:14224881 original size:54 final size:54
Alignment explanation
Indices: 14224744--14224899 Score: 233
Period size: 54 Copynumber: 2.9 Consensus size: 54
14224734 ACCCAAATAT
*
14224744 CCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTATTTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACTATTTTAC
*
14224798 CCTCAATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTA-TCATTTTAC
1 CCTCGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACT-ATTTTAC
* * * * *
14224852 CCTCGATTTACAGAATTACCGTTTTACCCTTAATTTACAAAATTACTA
1 CCTCGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACTA
14224900 AAATACCCTT
Statistics
Matches: 92, Mismatches: 8, Indels: 4
0.88 0.08 0.04
Matches are distributed among these distances:
53 1 0.01
54 90 0.98
55 1 0.01
ACGTcount: A:0.31, C:0.21, G:0.06, T:0.42
Consensus pattern (54 bp):
CCTCGATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTACTATTTTAC
Found at i:14224897 original size:27 final size:27
Alignment explanation
Indices: 14224744--14224881 Score: 222
Period size: 27 Copynumber: 5.1 Consensus size: 27
14224734 ACCCAAATAT
14224744 CCTCGATTTATAGAATTACCATTTTAC
1 CCTCGATTTATAGAATTACCATTTTAC
*
14224771 CCTCGATTTATAGAATTACTATTTTAC
1 CCTCGATTTATAGAATTACCATTTTAC
*
14224798 CCTCAATTTATAGAATTACCATTTTAC
1 CCTCGATTTATAGAATTACCATTTTAC
* *
14224825 CCTTGATTTATAGAATTATCATTTTAC
1 CCTCGATTTATAGAATTACCATTTTAC
* *
14224852 CCTCGATTTACAGAATTACCGTTTTAC
1 CCTCGATTTATAGAATTACCATTTTAC
14224879 CCT
1 CCT
14224882 TAATTTACAA
Statistics
Matches: 101, Mismatches: 10, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 101 1.00
ACGTcount: A:0.29, C:0.22, G:0.07, T:0.42
Consensus pattern (27 bp):
CCTCGATTTATAGAATTACCATTTTAC
Found at i:14224906 original size:27 final size:27
Alignment explanation
Indices: 14224822--14224995 Score: 118
Period size: 27 Copynumber: 6.4 Consensus size: 27
14224812 ATTACCATTT
* * * ***
14224822 TACCCTTGATTTATAGAATTATCATTT
1 TACCCTTGATTTACAAAATTACCAAAA
* * ****
14224849 TACCCTCGATTTACAGAATTACCGTTT
1 TACCCTTGATTTACAAAATTACCAAAA
* *
14224876 TACCCTTAATTTACAAAATTACTAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
*
14224903 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTACAAAATTACCAAAA
* * *
14224930 TACCCTCGA-TCAGTAAAATTACCAAAA
1 TACCCTTGATTTA-CAAAATTACCAAAA
* ** *
14224957 TACCCCT-AGTTTGTAAAATTACTAAAA
1 TACCCTTGA-TTTACAAAATTACCAAAA
14224984 TACCCTTGATTT
1 TACCCTTGATTT
14224996 GTAAATACCG
Statistics
Matches: 118, Mismatches: 25, Indels: 8
0.78 0.17 0.05
Matches are distributed among these distances:
26 3 0.03
27 113 0.96
28 2 0.02
ACGTcount: A:0.37, C:0.21, G:0.07, T:0.35
Consensus pattern (27 bp):
TACCCTTGATTTACAAAATTACCAAAA
Found at i:14224907 original size:54 final size:54
Alignment explanation
Indices: 14224738--14224926 Score: 200
Period size: 54 Copynumber: 3.5 Consensus size: 54
14224728 AAAACTACCC
* * *
14224738 AAATATCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATTACTA
1 AAATACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTATAGAATTACTA
*** * *
14224792 TTTTACCCTCAATTTATAGAATTACCATTTTACCCTTGATTTATAGAATTA-TCA
1 AAATACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTATAGAATTACT-A
*** * * * *
14224846 TTTTACCCTCGATTTACAGAATTACCGTTTTACCCTTAATTTACAAAATTACTA
1 AAATACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTATAGAATTACTA
* * *
14224900 AAATACCCTTGGTTTACAAAATTACCA
1 AAATACCCTCGATTTACAGAATTACCA
14224927 AAATACCCTC
Statistics
Matches: 114, Mismatches: 19, Indels: 4
0.83 0.14 0.03
Matches are distributed among these distances:
53 1 0.01
54 112 0.98
55 1 0.01
ACGTcount: A:0.34, C:0.20, G:0.06, T:0.40
Consensus pattern (54 bp):
AAATACCCTCGATTTACAGAATTACCATTTTACCCTTGATTTATAGAATTACTA
Found at i:14224907 original size:81 final size:81
Alignment explanation
Indices: 14224723--14224926 Score: 237
Period size: 81 Copynumber: 2.5 Consensus size: 81
14224713 GTACCCCCGG
* * * * * *
14224723 TTTATAAAACTACCCAAATATCCTCGATTTATAGAATTACCATTTTACCCTCGATTTATAGAATT
1 TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATT
*
14224788 ACTATTTTACCCTCAA
66 ACCATTTTACCCTCAA
* * *** *
14224804 TTTATAGAATTACCATTTTACCCTTGATTTATAGAATTATCATTTTACCCTCGATTTACAGAATT
1 TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATT
* *
14224869 ACCGTTTTACCCTTAA
66 ACCATTTTACCCTCAA
* * * *
14224885 TTTACAAAATTACTAAAATACCCTTGGTTTACAAAATTACCA
1 TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTACCA
14224927 AAATACCCTC
Statistics
Matches: 100, Mismatches: 23, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
81 100 1.00
ACGTcount: A:0.34, C:0.21, G:0.06, T:0.39
Consensus pattern (81 bp):
TTTACAAAATTACCAAAATACCCTTGATTTATAGAATTACCATTTTACCCTCGATTTACAGAATT
ACCATTTTACCCTCAA
Found at i:14224996 original size:27 final size:27
Alignment explanation
Indices: 14224876--14225013 Score: 129
Period size: 27 Copynumber: 5.2 Consensus size: 27
14224866 ATTACCGTTT
* ** *
14224876 TACCCTTAATTTACAAAATTACTAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* **
14224903 TACCCTTGGTTTACAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* **
14224930 TACCCTCGATCAGTAAAATTACCAAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
* *
14224957 TACCCCT-AGTTTGTAAAATTACTAAAA
1 TACCCTTGA-TTTGTAAAATTACCAAAA
*
14224984 TACCCTTGATTTGT-AAA-TACCGAAA
1 TACCCTTGATTTGTAAAATTACCAAAA
14225009 TACCC
1 TACCC
14225014 CTGTAGGGTA
Statistics
Matches: 92, Mismatches: 17, Indels: 6
0.80 0.15 0.05
Matches are distributed among these distances:
25 11 0.12
26 4 0.04
27 76 0.83
28 1 0.01
ACGTcount: A:0.41, C:0.22, G:0.07, T:0.30
Consensus pattern (27 bp):
TACCCTTGATTTGTAAAATTACCAAAA
Found at i:14225121 original size:27 final size:27
Alignment explanation
Indices: 14225005--14225110 Score: 176
Period size: 27 Copynumber: 3.9 Consensus size: 27
14224995 TGTAAATACC
*
14225005 GAAATACCCCTGTAGGGTAGAATGACT
1 GAAATACCCCTGTAGGGTAGAATTACT
14225032 GAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCCTGTAGGGTAGAATTACT
* * *
14225059 GAAATACCCTTGTAGGGTAGAAATACC
1 GAAATACCCCTGTAGGGTAGAATTACT
14225086 GAAATACCCCTGTAGGGTAGAATTA
1 GAAATACCCCTGTAGGGTAGAATTA
14225111 TCGAGATACC
Statistics
Matches: 73, Mismatches: 6, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 73 1.00
ACGTcount: A:0.35, C:0.18, G:0.24, T:0.24
Consensus pattern (27 bp):
GAAATACCCCTGTAGGGTAGAATTACT
Found at i:14225131 original size:27 final size:26
Alignment explanation
Indices: 14225004--14225138 Score: 155
Period size: 27 Copynumber: 5.0 Consensus size: 26
14224994 TTGTAAATAC
* *
14225004 CGAAATACCCCTGTAGGGTAGAATGA
1 CGAAATACCCTTGTAGGGTAGAATTA
*
14225030 CTGAAATACCCCTGTAGGGTAGAATTA
1 C-GAAATACCCTTGTAGGGTAGAATTA
*
14225057 CTGAAATACCCTTGTAGGGTAGAAATA
1 C-GAAATACCCTTGTAGGGTAGAATTA
*
14225084 CCGAAATACCCCTGTAGGGTAGAATTA
1 -CGAAATACCCTTGTAGGGTAGAATTA
* *
14225111 TCGAGATACCCTTGT-GCGGTAAAATTA
1 -CGAAATACCCTTGTAG-GGTAGAATTA
14225138 C
1 C
14225139 CATTTTGCCC
Statistics
Matches: 97, Mismatches: 9, Indels: 6
0.87 0.08 0.05
Matches are distributed among these distances:
26 3 0.03
27 93 0.96
28 1 0.01
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.24
Consensus pattern (26 bp):
CGAAATACCCTTGTAGGGTAGAATTA
Found at i:14225150 original size:54 final size:54
Alignment explanation
Indices: 14225005--14225125 Score: 183
Period size: 54 Copynumber: 2.2 Consensus size: 54
14224995 TGTAAATACC
* *
14225005 GAAATACCCCTGTAGGGTAG-AATGACTGAAATACCCCTGTAGGGTAGAATTACT
1 GAAATACCCTTGTAGGGTAGAAAT-ACCGAAATACCCCTGTAGGGTAGAATTACT
14225059 GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTA-T
1 GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACT
*
14225112 CGAGATACCCTTGT
1 -GAAATACCCTTGT
14225126 GCGGTAAAAT
Statistics
Matches: 62, Mismatches: 3, Indels: 4
0.90 0.04 0.06
Matches are distributed among these distances:
53 1 0.02
54 58 0.94
55 3 0.05
ACGTcount: A:0.33, C:0.19, G:0.23, T:0.25
Consensus pattern (54 bp):
GAAATACCCTTGTAGGGTAGAAATACCGAAATACCCCTGTAGGGTAGAATTACT
Found at i:14225379 original size:24 final size:25
Alignment explanation
Indices: 14225343--14225410 Score: 102
Period size: 25 Copynumber: 2.8 Consensus size: 25
14225333 GGAAGTGCTA
* *
14225343 AAAGGGCTATGCCCCAGTTTA-CCG
1 AAAGGGCTTTGCCCCAGTTTATCAG
*
14225367 AAAGGACTTTGCCCCAGTTTATCAG
1 AAAGGGCTTTGCCCCAGTTTATCAG
14225392 AAAGGGCTTTGCCCCAGTT
1 AAAGGGCTTTGCCCCAGTT
14225411 ATTAAAAGAG
Statistics
Matches: 39, Mismatches: 4, Indels: 1
0.89 0.09 0.02
Matches are distributed among these distances:
24 19 0.49
25 20 0.51
ACGTcount: A:0.25, C:0.26, G:0.24, T:0.25
Consensus pattern (25 bp):
AAAGGGCTTTGCCCCAGTTTATCAG
Found at i:14231772 original size:30 final size:29
Alignment explanation
Indices: 14231725--14231785 Score: 104
Period size: 30 Copynumber: 2.1 Consensus size: 29
14231715 CAAGTAGCCG
*
14231725 AAGCTAGTTAAATTGCACACTTAGTGCCA
1 AAGCTAGTTAAACTGCACACTTAGTGCCA
14231754 AAGCTAGTTTAAACTGCACACTTAGTGCCA
1 AAGCTAG-TTAAACTGCACACTTAGTGCCA
14231784 AA
1 AA
14231786 ACTTCCGATT
Statistics
Matches: 30, Mismatches: 1, Indels: 1
0.94 0.03 0.03
Matches are distributed among these distances:
29 7 0.23
30 23 0.77
ACGTcount: A:0.36, C:0.21, G:0.16, T:0.26
Consensus pattern (29 bp):
AAGCTAGTTAAACTGCACACTTAGTGCCA
Found at i:14236922 original size:13 final size:13
Alignment explanation
Indices: 14236904--14236929 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14236894 AATAACATGG
14236904 ATTTAGAGCTTTA
1 ATTTAGAGCTTTA
14236917 ATTTAGAGCTTTA
1 ATTTAGAGCTTTA
14236930 CTTTTGTTGT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.31, C:0.08, G:0.15, T:0.46
Consensus pattern (13 bp):
ATTTAGAGCTTTA
Found at i:14237714 original size:41 final size:42
Alignment explanation
Indices: 14237575--14237721 Score: 145
Period size: 42 Copynumber: 3.5 Consensus size: 42
14237565 CTTTCCATTT
* * * * * *
14237575 AGCTCGCATGAACTTCTGTTTAACTCATATGAGTTTTCGTTC
1 AGCTCTCATGAGCTTCTGTTCAACCCTTATGGGTTTTCGTTC
* *
14237617 AGCTCT-ATTGAGCTTCTGTTTAACCCTTATGGGTTTCCGTTC
1 AGCTCTCA-TGAGCTTCTGTTCAACCCTTATGGGTTTTCGTTC
* * * * *
14237659 AGCTTTTATAAGCTTCTGTTCAACCCTTA-GGGTTTTTGTTT
1 AGCTCTCATGAGCTTCTGTTCAACCCTTATGGGTTTTCGTTC
*
14237700 AGCTCTCATGAGCTTCTATTCA
1 AGCTCTCATGAGCTTCTGTTCA
14237722 GCCTTCAGGC
Statistics
Matches: 87, Mismatches: 16, Indels: 5
0.81 0.15 0.05
Matches are distributed among these distances:
41 28 0.32
42 58 0.67
43 1 0.01
ACGTcount: A:0.18, C:0.22, G:0.17, T:0.43
Consensus pattern (42 bp):
AGCTCTCATGAGCTTCTGTTCAACCCTTATGGGTTTTCGTTC
Found at i:14241491 original size:138 final size:138
Alignment explanation
Indices: 14241239--14241554 Score: 411
Period size: 138 Copynumber: 2.3 Consensus size: 138
14241229 CAACCATATA
* * * *
14241239 AGGTGCTTGGGTTGTCATCTCGTTTTGCGTCAAAAGGTTTGGTGACGAGCTGAAGCTTGTAACAC
1 AGGTGCTTGGGTTGTCATCTCGTTTTGCATCAAAAGGTTTGGTGACGAACCGAAACTTGTAACAC
** *
14241304 TCTGCTAACCGAGCTGCCTTAAGAAAGGAGAAATAAATCAATTAAGGACATATGAAATTGAGTAA
66 TCCACTAACCGAGCTACCTTAAGAAAGGAGAAATAAATCAATTAAGGACATATGAAATTGAGT-A
14241369 CCAAG-ATG
130 CCAAGAATG
* * * * **
14241377 AGGTGCTTGGGTTGCCATCTTGTTTCGCATCAAAAGGTTTGGTGATGAACCGAAACTTGTAACGT
1 AGGTGCTTGGGTTGTCATCTCGTTTTGCATCAAAAGGTTTGGTGACGAACCGAAACTTGTAACAC
* ** * * *
14241442 TCCACTAACCGAGCTACCTTGAGAAAGGAGAAATAAATTGATTAGGGACATGTGAAATTGAGTTC
66 TCCACTAACCGAGCTACCTTAAGAAAGGAGAAATAAATCAATTAAGGACATATGAAATTGAGTAC
**
14241507 CTGGAATG
131 CAAGAATG
*
14241515 A-GTGCTTGGGTTGTCATCTCGTTTTGCATCAAAAAGTTTG
1 AGGTGCTTGGGTTGTCATCTCGTTTTGCATCAAAAGGTTTG
14241555 ATTATGTCTC
Statistics
Matches: 152, Mismatches: 25, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
137 38 0.25
138 114 0.75
ACGTcount: A:0.29, C:0.16, G:0.26, T:0.29
Consensus pattern (138 bp):
AGGTGCTTGGGTTGTCATCTCGTTTTGCATCAAAAGGTTTGGTGACGAACCGAAACTTGTAACAC
TCCACTAACCGAGCTACCTTAAGAAAGGAGAAATAAATCAATTAAGGACATATGAAATTGAGTAC
CAAGAATG
Found at i:14243509 original size:39 final size:39
Alignment explanation
Indices: 14243464--14243584 Score: 197
Period size: 39 Copynumber: 3.1 Consensus size: 39
14243454 AAGCAAGACA
*
14243464 CTGGAAATGTATCCGGGCTAAAGACCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
14243503 CTGGAAATGTATCCGGGCTAAAGTCCCGCAAGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
* * *
14243542 CTGGAAATTTATCCGAGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
14243581 CTGG
1 CTGG
14243585 TAACATAATT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.22, C:0.25, G:0.29, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:14247066 original size:23 final size:25
Alignment explanation
Indices: 14247031--14247078 Score: 64
Period size: 23 Copynumber: 2.0 Consensus size: 25
14247021 TATGTAATAT
* *
14247031 ATGTATTATCATGA-GAA-AAATTA
1 ATGTACTAACATGAGGAATAAATTA
14247054 ATGTACTAACATGAGGAATAAATTA
1 ATGTACTAACATGAGGAATAAATTA
14247079 CCCAATGTTT
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
23 12 0.57
24 3 0.14
25 6 0.29
ACGTcount: A:0.48, C:0.06, G:0.15, T:0.31
Consensus pattern (25 bp):
ATGTACTAACATGAGGAATAAATTA
Found at i:14247260 original size:20 final size:21
Alignment explanation
Indices: 14247219--14247261 Score: 61
Period size: 21 Copynumber: 2.1 Consensus size: 21
14247209 TTTTTACTAG
* *
14247219 TTATTATAGTTTATATTTAAT
1 TTATTAGAGTTTATAATTAAT
14247240 TTATTAGAGTTT-TAATTAAT
1 TTATTAGAGTTTATAATTAAT
14247260 TT
1 TT
14247262 TTTTTAATTA
Statistics
Matches: 20, Mismatches: 2, Indels: 1
0.87 0.09 0.04
Matches are distributed among these distances:
20 9 0.45
21 11 0.55
ACGTcount: A:0.33, C:0.00, G:0.07, T:0.60
Consensus pattern (21 bp):
TTATTAGAGTTTATAATTAAT
Found at i:14250773 original size:17 final size:18
Alignment explanation
Indices: 14250748--14250782 Score: 54
Period size: 17 Copynumber: 2.0 Consensus size: 18
14250738 TTTGAACATG
14250748 AATGATTTAAAT-TAAAA
1 AATGATTTAAATCTAAAA
*
14250765 AATGGTTTAAATCTAAAA
1 AATGATTTAAATCTAAAA
14250783 CCATCCAATT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 11 0.69
18 5 0.31
ACGTcount: A:0.54, C:0.03, G:0.09, T:0.34
Consensus pattern (18 bp):
AATGATTTAAATCTAAAA
Found at i:14251831 original size:20 final size:20
Alignment explanation
Indices: 14251803--14251840 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14251793 ATATAAAGAC
* *
14251803 TAAATAGATTTATTTAATAA
1 TAAAGAGATTAATTTAATAA
14251823 TAAAGAGATTAATTTAAT
1 TAAAGAGATTAATTTAAT
14251841 CTAGTCCCTA
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.50, C:0.00, G:0.08, T:0.42
Consensus pattern (20 bp):
TAAAGAGATTAATTTAATAA
Found at i:14254598 original size:53 final size:55
Alignment explanation
Indices: 14254521--14254641 Score: 194
Period size: 55 Copynumber: 2.3 Consensus size: 55
14254511 ATGGTAAGGG
*
14254521 TTAATTTTAA-TTTTTGAATATTATTTAA-A-ATTTTTCATTTATTTAATTTTAA
1 TTAATTTTAATTTTTTGAATATTATTTAATATATTTTTCATTTATGTAATTTTAA
*
14254573 TTAATTTTAATTTTTTGAATATTATTTAATATTTTTTTCATTTATGTAATTTTAA
1 TTAATTTTAATTTTTTGAATATTATTTAATATATTTTTCATTTATGTAATTTTAA
*
14254628 TTAATTTTTATTTT
1 TTAATTTTAATTTT
14254642 ATAATTTTTT
Statistics
Matches: 63, Mismatches: 3, Indels: 3
0.91 0.04 0.04
Matches are distributed among these distances:
52 10 0.16
53 18 0.29
54 1 0.02
55 34 0.54
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (55 bp):
TTAATTTTAATTTTTTGAATATTATTTAATATATTTTTCATTTATGTAATTTTAA
Found at i:14256157 original size:18 final size:18
Alignment explanation
Indices: 14256134--14256175 Score: 68
Period size: 18 Copynumber: 2.4 Consensus size: 18
14256124 TGCCAGGTGC
*
14256134 GTATCCTAGCCCTTATAT
1 GTATCCTAACCCTTATAT
14256152 GTATCCTAACCCTTATAT
1 GTATCCTAACCCTTATAT
14256170 GT-TCCT
1 GTATCCT
14256176 TTTCCCAGTC
Statistics
Matches: 23, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
17 4 0.17
18 19 0.83
ACGTcount: A:0.21, C:0.29, G:0.10, T:0.40
Consensus pattern (18 bp):
GTATCCTAACCCTTATAT
Found at i:14259457 original size:28 final size:27
Alignment explanation
Indices: 14259397--14259547 Score: 248
Period size: 27 Copynumber: 5.5 Consensus size: 27
14259387 TATTAAGTCT
* *
14259397 GCACACTCAGTGCTATATAGTCAACTC
1 GCACACTTAGTGCTACATAGTCAACTC
*
14259424 GCACACTTAGTGCTACATAATCAAACTC
1 GCACACTTAGTGCTACATAGTC-AACTC
14259452 GCACACTTAGTGCTACATAGTCAACTC
1 GCACACTTAGTGCTACATAGTCAACTC
14259479 GCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTC-AACTC
*
14259507 GCACACTTAGTGCTACATAGTCAATTC
1 GCACACTTAGTGCTACATAGTCAACTC
14259534 GCACACTTAGTGCT
1 GCACACTTAGTGCT
14259548 GCACAATTTA
Statistics
Matches: 117, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 64 0.55
28 53 0.45
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (27 bp):
GCACACTTAGTGCTACATAGTCAACTC
Found at i:14259464 original size:55 final size:55
Alignment explanation
Indices: 14259397--14259547 Score: 266
Period size: 55 Copynumber: 2.7 Consensus size: 55
14259387 TATTAAGTCT
* *
14259397 GCACACTCAGTGCTATATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTC
1 GCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTC
*
14259452 GCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAGTCAAACTC
1 GCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTC
*
14259507 GCACACTTAGTGCTACATAGTCAATTCGCACACTTAGTGCT
1 GCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCT
14259548 GCACAATTTA
Statistics
Matches: 92, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 92 1.00
ACGTcount: A:0.30, C:0.28, G:0.15, T:0.26
Consensus pattern (55 bp):
GCACACTTAGTGCTACATAGTCAACTCGCACACTTAGTGCTACATAATCAAACTC
Found at i:14262959 original size:38 final size:38
Alignment explanation
Indices: 14262874--14262993 Score: 188
Period size: 39 Copynumber: 3.1 Consensus size: 38
14262864 ATTACCAGCA
*
14262874 CCAGCACGAAGCCTGCGGG-TCTTTAGCCCGGACACATTT
1 CCAGCACGAAGCCTGCGGGAT-TTTAGCCCGGA-TCATTT
14262913 CCAGCACGAAGCCTGCGGGATTTTAGCCCGGATCATTT
1 CCAGCACGAAGCCTGCGGGATTTTAGCCCGGATCATTT
*
14262951 CCAGCACGAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACGAAGCCTGCGGGATTTTAGCCCGGAT-CATTT
14262990 CCAG
1 CCAG
14262994 TGTCTTGCAT
Statistics
Matches: 77, Mismatches: 2, Indels: 4
0.93 0.02 0.05
Matches are distributed among these distances:
38 37 0.48
39 39 0.51
40 1 0.01
ACGTcount: A:0.22, C:0.32, G:0.26, T:0.21
Consensus pattern (38 bp):
CCAGCACGAAGCCTGCGGGATTTTAGCCCGGATCATTT
Found at i:14274523 original size:126 final size:126
Alignment explanation
Indices: 14274297--14274550 Score: 348
Period size: 126 Copynumber: 2.0 Consensus size: 126
14274287 GGCCAAACAT
* ** * *
14274297 GAACTACTTTAGAAAAAGAGCATCCATGTGAGAGCTTTTTTTAGAAATTTTGCTGACATTGCATC
1 GAACTACTCTAGAAAAAGAGCATCCACATGAGAGCTTTTTTCAGAAATTTTGCTGACAATGCATC
* * *
14274362 CTGCTTGAAGCGTTTTTGACACTATTTGCTCAGAAATATCTTCTCAAAATTATTTTTTCAG
66 CTGCTTGAAACATTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAG
* * * *
14274423 GAACTGCTCTAGAAAAAGAGCATCCACATGGGAGCTTTTTTCAGTAATTTTGCAT-ACAATGCGT
1 GAACTACTCTAGAAAAAGAGCATCCACATGAGAGCTTTTTTCAGAAATTTTGC-TGACAATGCAT
* * * *
14274487 CTTGCTTGAAACATTTTTGACACTATTTGTTTAGAAACGTCTTCTCAAAATTATTTTTTCAG
65 CCTGCTTGAAACATTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAG
14274549 GA
1 GA
14274551 TAAAAATAGT
Statistics
Matches: 111, Mismatches: 16, Indels: 2
0.86 0.12 0.02
Matches are distributed among these distances:
126 110 0.99
127 1 0.01
ACGTcount: A:0.30, C:0.17, G:0.16, T:0.37
Consensus pattern (126 bp):
GAACTACTCTAGAAAAAGAGCATCCACATGAGAGCTTTTTTCAGAAATTTTGCTGACAATGCATC
CTGCTTGAAACATTTTTGACACTATTTGCTCAGAAACATCTTCTCAAAATTATTTTTTCAG
Found at i:14274720 original size:33 final size:33
Alignment explanation
Indices: 14274608--14274731 Score: 151
Period size: 34 Copynumber: 3.7 Consensus size: 33
14274598 AAAAAAAAAC
* *
14274608 TAAACCCTAATTTAATTAAGTTTAACCTT-AAACCC
1 TAAACCCTAATTTAATTAA-TTT-A-TTTAAAACCA
* *
14274643 TAAATCCTAATTTAATTAATTTATTTAAAACCCT
1 TAAACCCTAATTTAATTAATTTATTTAAAA-CCA
* *
14274677 TAAACACTAATTTACTTAATTTATTTAAAACCA
1 TAAACCCTAATTTAATTAATTTATTTAAAACCA
14274710 TAAACCCTAATTTAATTAATTT
1 TAAACCCTAATTTAATTAATTT
14274732 TTACAAAATA
Statistics
Matches: 78, Mismatches: 9, Indels: 6
0.84 0.10 0.06
Matches are distributed among these distances:
32 2 0.03
33 26 0.33
34 32 0.41
35 18 0.23
ACGTcount: A:0.42, C:0.17, G:0.01, T:0.40
Consensus pattern (33 bp):
TAAACCCTAATTTAATTAATTTATTTAAAACCA
Found at i:14274849 original size:34 final size:34
Alignment explanation
Indices: 14274775--14274850 Score: 91
Period size: 34 Copynumber: 2.2 Consensus size: 34
14274765 AAAATCCACT
* *
14274775 AAAACCCTAAACCTTAACTTATTTTAACAAAAAC
1 AAAACCTTAAACCTTAAATTATTTTAACAAAAAC
* *
14274809 ATAAACCTTAAACC-TAAATTATTTTAGCAAAACCC
1 A-AAACCTTAAACCTTAAATTATTTTAACAAAA-AC
14274844 AAAACCT
1 AAAACCT
14274851 AAAAACCCTA
Statistics
Matches: 36, Mismatches: 4, Indels: 4
0.82 0.09 0.09
Matches are distributed among these distances:
34 23 0.64
35 13 0.36
ACGTcount: A:0.49, C:0.24, G:0.01, T:0.26
Consensus pattern (34 bp):
AAAACCTTAAACCTTAAATTATTTTAACAAAAAC
Found at i:14277537 original size:32 final size:32
Alignment explanation
Indices: 14277493--14277561 Score: 120
Period size: 32 Copynumber: 2.2 Consensus size: 32
14277483 GTGAATAAAA
14277493 CAGTATCAGTACAGTCTGGGCCAAGCCCTATT
1 CAGTATCAGTACAGTCTGGGCCAAGCCCTATT
* *
14277525 CAGTATCCGTACAGTCTGGTCCAAGCCCTATT
1 CAGTATCAGTACAGTCTGGGCCAAGCCCTATT
14277557 CAGTA
1 CAGTA
14277562 GTAGAGTGAG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
32 35 1.00
ACGTcount: A:0.25, C:0.29, G:0.20, T:0.26
Consensus pattern (32 bp):
CAGTATCAGTACAGTCTGGGCCAAGCCCTATT
Found at i:14277784 original size:26 final size:27
Alignment explanation
Indices: 14277741--14277799 Score: 68
Period size: 26 Copynumber: 2.2 Consensus size: 27
14277731 AATGTAGCTG
* *
14277741 CCAGTAATAGTAAGTGTGGCA-AGCCA
1 CCAGTAATAGCAAGTGTGACATAGCCA
*
14277767 CCAGTAATAGCATA-TGTGACATAGTCA
1 CCAGTAATAGCA-AGTGTGACATAGCCA
14277794 CCAGTA
1 CCAGTA
14277800 CAGTACTTCC
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
26 17 0.61
27 11 0.39
ACGTcount: A:0.36, C:0.20, G:0.22, T:0.22
Consensus pattern (27 bp):
CCAGTAATAGCAAGTGTGACATAGCCA
Found at i:14282842 original size:31 final size:31
Alignment explanation
Indices: 14282804--14282867 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
14282794 CCTTTTCATA
14282804 TTTCATATTTCACAACACTGGGCCGAAGCCT
1 TTTCATATTTCACAACACTGGGCCGAAGCCT
* **
14282835 TTTCATATTTCATATTACTGGGCCGAAGCCT
1 TTTCATATTTCACAACACTGGGCCGAAGCCT
14282866 TT
1 TT
14282868 ACTGTAAACG
Statistics
Matches: 30, Mismatches: 3, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
31 30 1.00
ACGTcount: A:0.23, C:0.25, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCATATTTCACAACACTGGGCCGAAGCCT
Found at i:14283115 original size:23 final size:23
Alignment explanation
Indices: 14283061--14283151 Score: 139
Period size: 23 Copynumber: 3.9 Consensus size: 23
14283051 GCTTTATCAT
*
14283061 ATAACTGGAGGCCT-AGCCTCTTTGA
1 ATAACTGG-GGCATAAGCC-CTTT-A
14283086 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
14283109 ATAACTGGGGCATAAGCCCTTTA
1 ATAACTGGGGCATAAGCCCTTTA
14283132 ATAACTGGGGCATAAGCCCT
1 ATAACTGGGGCATAAGCCCT
14283152 CTTTCACTTC
Statistics
Matches: 64, Mismatches: 1, Indels: 4
0.93 0.01 0.06
Matches are distributed among these distances:
23 44 0.69
24 8 0.12
25 12 0.19
ACGTcount: A:0.29, C:0.23, G:0.23, T:0.25
Consensus pattern (23 bp):
ATAACTGGGGCATAAGCCCTTTA
Found at i:14283229 original size:20 final size:20
Alignment explanation
Indices: 14283204--14283270 Score: 116
Period size: 20 Copynumber: 3.4 Consensus size: 20
14283194 TTATGATTAC
14283204 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
14283224 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
14283244 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
14283264 ACCATGT
1 ATCATGT
14283271 TTATCAAAAT
Statistics
Matches: 44, Mismatches: 3, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
20 44 1.00
ACGTcount: A:0.33, C:0.21, G:0.12, T:0.34
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:14283235 original size:11 final size:11
Alignment explanation
Indices: 14283204--14283259 Score: 57
Period size: 11 Copynumber: 5.5 Consensus size: 11
14283194 TTATGATTAC
14283204 ATCATGTGCAT
1 ATCATGTGCAT
*
14283215 ATCA--TACAT
1 ATCATGTGCAT
14283224 ATCATGTGCAT
1 ATCATGTGCAT
*
14283235 ATCA--TACAT
1 ATCATGTGCAT
*
14283244 GTCATGTGCAT
1 ATCATGTGCAT
14283255 ATCAT
1 ATCAT
14283260 ACATACCATG
Statistics
Matches: 35, Mismatches: 6, Indels: 8
0.71 0.12 0.16
Matches are distributed among these distances:
9 15 0.43
11 20 0.57
ACGTcount: A:0.32, C:0.20, G:0.12, T:0.36
Consensus pattern (11 bp):
ATCATGTGCAT
Found at i:14283353 original size:25 final size:25
Alignment explanation
Indices: 14283307--14283354 Score: 60
Period size: 25 Copynumber: 1.9 Consensus size: 25
14283297 ATACATAAAC
* * * *
14283307 CCTAGGGGTATAATGGTTATTTTTA
1 CCTAGGGGCAAAACGGTCATTTTTA
14283332 CCTAGGGGCAAAACGGTCATTTT
1 CCTAGGGGCAAAACGGTCATTTT
14283355 CATGTTATAA
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
25 19 1.00
ACGTcount: A:0.25, C:0.15, G:0.25, T:0.35
Consensus pattern (25 bp):
CCTAGGGGCAAAACGGTCATTTTTA
Found at i:14288626 original size:37 final size:37
Alignment explanation
Indices: 14288571--14288644 Score: 130
Period size: 37 Copynumber: 2.0 Consensus size: 37
14288561 CTCAAACTGG
* *
14288571 CCCATCAAATTTGGCCCTCTTATTAGGTCTACCTGCT
1 CCCATCAAATCTGACCCTCTTATTAGGTCTACCTGCT
14288608 CCCATCAAATCTGACCCTCTTATTAGGTCTACCTGCT
1 CCCATCAAATCTGACCCTCTTATTAGGTCTACCTGCT
14288645 GAACCTGAGG
Statistics
Matches: 35, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
37 35 1.00
ACGTcount: A:0.20, C:0.34, G:0.12, T:0.34
Consensus pattern (37 bp):
CCCATCAAATCTGACCCTCTTATTAGGTCTACCTGCT
Found at i:14290442 original size:32 final size:32
Alignment explanation
Indices: 14290405--14290472 Score: 118
Period size: 32 Copynumber: 2.1 Consensus size: 32
14290395 TGAAGAACAT
14290405 AGTATCAGTACAATCTGGGCCAAGCCCTATTC
1 AGTATCAGTACAATCTGGGCCAAGCCCTATTC
* *
14290437 AGTATCCGTACAGTCTGGGCCAAGCCCTATTC
1 AGTATCAGTACAATCTGGGCCAAGCCCTATTC
14290469 AGTA
1 AGTA
14290473 GTAAAGTGAG
Statistics
Matches: 34, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
32 34 1.00
ACGTcount: A:0.26, C:0.28, G:0.21, T:0.25
Consensus pattern (32 bp):
AGTATCAGTACAATCTGGGCCAAGCCCTATTC
Found at i:14292600 original size:31 final size:31
Alignment explanation
Indices: 14292561--14292646 Score: 113
Period size: 31 Copynumber: 2.8 Consensus size: 31
14292551 TCAATCTCAG
14292561 CATA-CACTGGGCCGAAGCCTTTACATTA-T
1 CATATCACTGGGCCGAAGCCTTTACATTACT
* * * *
14292590 CCATGTCACTGAGCTGAAGCCTTTTCATTACT
1 -CATATCACTGGGCCGAAGCCTTTACATTACT
14292622 CATATCACTGGGCCGAAGCCTTTAC
1 CATATCACTGGGCCGAAGCCTTTAC
14292647 TACAAATGGT
Statistics
Matches: 46, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
30 3 0.07
31 42 0.91
32 1 0.02
ACGTcount: A:0.24, C:0.29, G:0.17, T:0.29
Consensus pattern (31 bp):
CATATCACTGGGCCGAAGCCTTTACATTACT
Found at i:14292898 original size:25 final size:26
Alignment explanation
Indices: 14292865--14292934 Score: 99
Period size: 25 Copynumber: 2.8 Consensus size: 26
14292855 CCTCTTTAAT
14292865 AACTGGGGCAAAGCCCTTTTT-GATA
1 AACTGGGGCAAAGCCCTTTTTCGATA
* *
14292890 AACTAGGGCAAAG-CCTTTTTCGGTA
1 AACTGGGGCAAAGCCCTTTTTCGATA
*
14292915 AACTGGGGCATAGCCCTTTT
1 AACTGGGGCAAAGCCCTTTT
14292935 GCACTTCCTC
Statistics
Matches: 39, Mismatches: 4, Indels: 3
0.85 0.09 0.07
Matches are distributed among these distances:
24 7 0.18
25 26 0.67
26 6 0.15
ACGTcount: A:0.26, C:0.21, G:0.24, T:0.29
Consensus pattern (26 bp):
AACTGGGGCAAAGCCCTTTTTCGATA
Found at i:14293093 original size:25 final size:25
Alignment explanation
Indices: 14293065--14293112 Score: 69
Period size: 25 Copynumber: 1.9 Consensus size: 25
14293055 ATAATTAAAC
* **
14293065 CCTAGGGGTAAAATGGTCATTTTTA
1 CCTAGGGGCAAAACAGTCATTTTTA
14293090 CCTAGGGGCAAAACAGTCATTTT
1 CCTAGGGGCAAAACAGTCATTTT
14293113 CATATTATAA
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
25 20 1.00
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.31
Consensus pattern (25 bp):
CCTAGGGGCAAAACAGTCATTTTTA
Found at i:14294680 original size:13 final size:13
Alignment explanation
Indices: 14294662--14294686 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14294652 TAATGGTATA
14294662 TTGAATCCATGAT
1 TTGAATCCATGAT
14294675 TTGAATCCATGA
1 TTGAATCCATGA
14294687 AAATTTAGTA
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.36
Consensus pattern (13 bp):
TTGAATCCATGAT
Found at i:14296123 original size:47 final size:47
Alignment explanation
Indices: 14296066--14296181 Score: 142
Period size: 47 Copynumber: 2.5 Consensus size: 47
14296056 ATTCAGCCAA
* * *
14296066 GAAAGTGTATATATGTGATAAGGCCTAATGGCCGATGTGATGAATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGT
* * * * *
14296113 GAATGTGTATATATGTGACAGGGCCGAGTGGCCAACGTGATGGATGT
1 GAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGT
* *
14296160 GAAAGTGCATAAATGTGATAAG
1 GAAAGTGTATATATGTGATAAG
14296182 TCCCGAAGGG
Statistics
Matches: 56, Mismatches: 13, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
47 56 1.00
ACGTcount: A:0.32, C:0.09, G:0.32, T:0.27
Consensus pattern (47 bp):
GAAAGTGTATATATGTGATAAGGCCGAATGGCCAACGTGATGAATGT
Found at i:14298856 original size:11 final size:11
Alignment explanation
Indices: 14298840--14298869 Score: 51
Period size: 11 Copynumber: 2.7 Consensus size: 11
14298830 GCACCTCCCT
14298840 AGCGTCCTCCA
1 AGCGTCCTCCA
14298851 AGCGTCCTCCA
1 AGCGTCCTCCA
*
14298862 AGCATCCT
1 AGCGTCCT
14298870 TAGCCACTGG
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
11 18 1.00
ACGTcount: A:0.20, C:0.43, G:0.17, T:0.20
Consensus pattern (11 bp):
AGCGTCCTCCA
Found at i:14300606 original size:20 final size:20
Alignment explanation
Indices: 14300581--14300618 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
14300571 TAAGCTTATG
*
14300581 ATAAGTAAATGGAATGGTAA
1 ATAAGTAAATGAAATGGTAA
*
14300601 ATAAGTAGATGAAATGGT
1 ATAAGTAAATGAAATGGT
14300619 TTATTGTTTT
Statistics
Matches: 16, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
20 16 1.00
ACGTcount: A:0.47, C:0.00, G:0.26, T:0.26
Consensus pattern (20 bp):
ATAAGTAAATGAAATGGTAA
Found at i:14302762 original size:40 final size:40
Alignment explanation
Indices: 14302684--14302825 Score: 200
Period size: 40 Copynumber: 3.6 Consensus size: 40
14302674 AACCCAAGTA
* *
14302684 CCTTCGGGAATTAG-CCGGATATAG-CAACTCA-CACAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTC-ACT-AGCAAAAATG
* *
14302723 CCTTCGGGTCTTAGCCCGAATATAGTCACTAGCAAAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAAAAATG
*
14302763 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCATAAATG
1 CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAAAAATG
14302803 CCTTCGGGACTTAGCCCGGATAT
1 CCTTCGGGACTTAGCCCGGATAT
14302826 CATCTGAATA
Statistics
Matches: 93, Mismatches: 7, Indels: 5
0.89 0.07 0.05
Matches are distributed among these distances:
39 13 0.14
40 79 0.85
41 1 0.01
ACGTcount: A:0.28, C:0.26, G:0.22, T:0.24
Consensus pattern (40 bp):
CCTTCGGGACTTAGCCCGGATATAGTCACTAGCAAAAATG
Found at i:14310466 original size:12 final size:12
Alignment explanation
Indices: 14310449--14310478 Score: 60
Period size: 12 Copynumber: 2.5 Consensus size: 12
14310439 GTGGGCCCCG
14310449 CACGGCAGACCA
1 CACGGCAGACCA
14310461 CACGGCAGACCA
1 CACGGCAGACCA
14310473 CACGGC
1 CACGGC
14310479 CAAGGCCATT
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 18 1.00
ACGTcount: A:0.30, C:0.43, G:0.27, T:0.00
Consensus pattern (12 bp):
CACGGCAGACCA
Found at i:14311057 original size:34 final size:33
Alignment explanation
Indices: 14310993--14311067 Score: 89
Period size: 34 Copynumber: 2.2 Consensus size: 33
14310983 AATTGGGTTA
* * *
14310993 AAGCCCACACTGTTACTGCTAATG-TAATGGGCT
1 AAGCCCACACTGATATTGCTACTGAT-ATGGGCT
14311026 AAGGCCCACACTGATATTGCTACTGATATGGGCTT
1 AA-GCCCACACTGATATTGCTACTGATATGGGC-T
14311061 AAGCCCA
1 AAGCCCA
14311068 GACCGTCCAA
Statistics
Matches: 36, Mismatches: 3, Indels: 5
0.82 0.07 0.11
Matches are distributed among these distances:
33 2 0.06
34 30 0.83
35 4 0.11
ACGTcount: A:0.28, C:0.25, G:0.21, T:0.25
Consensus pattern (33 bp):
AAGCCCACACTGATATTGCTACTGATATGGGCT
Found at i:14318043 original size:24 final size:24
Alignment explanation
Indices: 14318016--14318086 Score: 99
Period size: 24 Copynumber: 3.0 Consensus size: 24
14318006 GGAGTGATAT
14318016 GTGGAGGAAATCAAGGAGAGGATG
1 GTGGAGGAAATCAAGGAGAGGATG
*
14318040 GTGGAGGAAATTAAGGAGAGGATG
1 GTGGAGGAAATCAAGGAGAGGATG
* *
14318064 GGGGA-GAAACTCAATGAGAGGAT
1 GTGGAGGAAA-TCAAGGAGAGGAT
14318087 TATGGAGAGA
Statistics
Matches: 42, Mismatches: 4, Indels: 2
0.88 0.08 0.04
Matches are distributed among these distances:
23 4 0.10
24 38 0.90
ACGTcount: A:0.38, C:0.04, G:0.44, T:0.14
Consensus pattern (24 bp):
GTGGAGGAAATCAAGGAGAGGATG
Found at i:14318272 original size:22 final size:22
Alignment explanation
Indices: 14318230--14318271 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
14318220 GGTCTTTTAG
* *
14318230 GTTTTGTTTTGTTCTTCTTTTC
1 GTTTTGTTTTGCTCTGCTTTTC
14318252 GTTTTGTTTT-CTCTGCTTTT
1 GTTTTGTTTTGCTCTGCTTTT
14318272 TGTGCTACTT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
21 8 0.44
22 10 0.56
ACGTcount: A:0.00, C:0.14, G:0.14, T:0.71
Consensus pattern (22 bp):
GTTTTGTTTTGCTCTGCTTTTC
Found at i:14319216 original size:19 final size:17
Alignment explanation
Indices: 14319192--14319231 Score: 53
Period size: 18 Copynumber: 2.2 Consensus size: 17
14319182 TGGGCCACGA
14319192 TGGGCCAAAATGGGCTGTG
1 TGGGCC-AAATGGGCT-TG
*
14319211 TGGGCCCAATGGGCTTG
1 TGGGCCAAATGGGCTTG
14319228 TGGG
1 TGGG
14319232 ATCCACACGG
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 6 0.30
18 8 0.40
19 6 0.30
ACGTcount: A:0.15, C:0.17, G:0.45, T:0.23
Consensus pattern (17 bp):
TGGGCCAAATGGGCTTG
Found at i:14320677 original size:21 final size:21
Alignment explanation
Indices: 14320647--14320692 Score: 76
Period size: 21 Copynumber: 2.2 Consensus size: 21
14320637 AATATAGTAG
14320647 GTAG-AAATACTAAGACTACT
1 GTAGAAAATACTAAGACTACT
*
14320667 GTAGAAAATACTGAGACTACT
1 GTAGAAAATACTAAGACTACT
14320688 GTAGA
1 GTAGA
14320693 TAAAGGACTA
Statistics
Matches: 24, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
20 4 0.17
21 20 0.83
ACGTcount: A:0.43, C:0.13, G:0.20, T:0.24
Consensus pattern (21 bp):
GTAGAAAATACTAAGACTACT
Found at i:14325545 original size:27 final size:27
Alignment explanation
Indices: 14325515--14325574 Score: 66
Period size: 29 Copynumber: 2.1 Consensus size: 27
14325505 GTTATGACAC
* *
14325515 AAGTTGCATGTATGTTTTAATGGCTAG
1 AAGTTGCAGGTATATTTTAATGGCTAG
* *
14325542 AAGTGTTTCAGGTGTATTTTAATGGCTAG
1 AA--GTTGCAGGTATATTTTAATGGCTAG
14325571 AAGT
1 AAGT
14325575 GTTTTGGGTG
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
27 4 0.15
29 23 0.85
ACGTcount: A:0.27, C:0.07, G:0.27, T:0.40
Consensus pattern (27 bp):
AAGTTGCAGGTATATTTTAATGGCTAG
Found at i:14329360 original size:13 final size:13
Alignment explanation
Indices: 14329342--14329366 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14329332 CCAAATCGTC
14329342 AAAAATTCATTCT
1 AAAAATTCATTCT
14329355 AAAAATTCATTC
1 AAAAATTCATTC
14329367 CAATGGAAAT
Statistics
Matches: 12, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 12 1.00
ACGTcount: A:0.48, C:0.16, G:0.00, T:0.36
Consensus pattern (13 bp):
AAAAATTCATTCT
Found at i:14332620 original size:42 final size:42
Alignment explanation
Indices: 14332506--14332632 Score: 157
Period size: 43 Copynumber: 3.0 Consensus size: 42
14332496 AGTACCATAC
* *
14332506 CAATGCCATATCCCAGATATGGTCTTACATGGAATCTCAAAT
1 CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCAAAT
* * * **
14332548 CAATGCCAATAGCCTAGCTATGGTCTTACACGAAATCTCATGT
1 CAATGCC-ATATCCCAGATATGGTCTTACACGAAATCTCAAAT
*
14332591 CGATGCCATATCCCAGATATGGTCTTACACGTAAA-CTCAAAT
1 CAATGCCATATCCCAGATATGGTCTTACACG-AAATCTCAAAT
14332633 AACCCTAATA
Statistics
Matches: 70, Mismatches: 13, Indels: 4
0.80 0.15 0.05
Matches are distributed among these distances:
42 33 0.47
43 37 0.53
ACGTcount: A:0.32, C:0.25, G:0.15, T:0.28
Consensus pattern (42 bp):
CAATGCCATATCCCAGATATGGTCTTACACGAAATCTCAAAT
Found at i:14335088 original size:45 final size:45
Alignment explanation
Indices: 14335007--14335096 Score: 110
Period size: 45 Copynumber: 2.0 Consensus size: 45
14334997 AACTACATAG
* * *
14335007 ATCGATGTCAATGTCCCAGACGTGGTCCTATACGAAAACAAATAT
1 ATCGATGCCAACGTCCCAGACGGGGTCCTATACGAAAACAAATAT
* * *
14335052 ATCGATGCCAACGTCCCAGATGGGGTCTTACT-CGAAAACACATAT
1 ATCGATGCCAACGTCCCAGACGGGGTCCTA-TACGAAAACAAATAT
14335097 TAGAATCCTA
Statistics
Matches: 38, Mismatches: 6, Indels: 2
0.83 0.13 0.04
Matches are distributed among these distances:
45 37 0.97
46 1 0.03
ACGTcount: A:0.33, C:0.24, G:0.19, T:0.23
Consensus pattern (45 bp):
ATCGATGCCAACGTCCCAGACGGGGTCCTATACGAAAACAAATAT
Found at i:14338422 original size:30 final size:30
Alignment explanation
Indices: 14338382--14338441 Score: 102
Period size: 30 Copynumber: 2.0 Consensus size: 30
14338372 AGTAAACGAA
* *
14338382 AAACAGTAACCTCGAATCATCAAAGGACAT
1 AAACAATAACCTCAAATCATCAAAGGACAT
14338412 AAACAATAACCTCAAATCATCAAAGGACAT
1 AAACAATAACCTCAAATCATCAAAGGACAT
14338442 TTCTTACATA
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
30 28 1.00
ACGTcount: A:0.50, C:0.23, G:0.10, T:0.17
Consensus pattern (30 bp):
AAACAATAACCTCAAATCATCAAAGGACAT
Found at i:14350381 original size:25 final size:24
Alignment explanation
Indices: 14350353--14350401 Score: 62
Period size: 25 Copynumber: 2.0 Consensus size: 24
14350343 ATGCTACGAG
*
14350353 ATATTTATTTTACTGCTGATCTAA
1 ATATCTATTTTACTGCTGATCTAA
* *
14350377 NATATCTGTTTTCCTGCTGATCTAA
1 -ATATCTATTTTACTGCTGATCTAA
14350402 TGCTTTTACC
Statistics
Matches: 21, Mismatches: 3, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
25 21 1.00
ACGTcount: A:0.24, C:0.16, G:0.10, T:0.47
Consensus pattern (24 bp):
ATATCTATTTTACTGCTGATCTAA
Found at i:14354242 original size:93 final size:93
Alignment explanation
Indices: 14354110--14354282 Score: 256
Period size: 93 Copynumber: 1.9 Consensus size: 93
14354100 CGCCCATAAG
* * * * *
14354110 CGAACTCGGACTCAACTCAATGAGCACGGGCGTTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCACGGACATTCGCATCCATAAGTGAACCCAGACTCAACTCA
14354175 ACGAGCTCGGATGCCTAGTTACATCTCA
66 ACGAGCTCGGATGCCTAGTTACATCTCA
* ** *
14354203 CGAACTTGGACTCAACTCAACGAGTTCGGACATTTGCATCCATAAGTGAACCCAGACTCAACTCA
1 CGAACTCGGACTCAACTCAACGAGCACGGACATTCGCATCCATAAGTGAACCCAGACTCAACTCA
*
14354268 ACGAGTTCGGATGCC
66 ACGAGCTCGGATGCC
14354283 CAAATATCCC
Statistics
Matches: 70, Mismatches: 10, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
93 70 1.00
ACGTcount: A:0.29, C:0.29, G:0.21, T:0.21
Consensus pattern (93 bp):
CGAACTCGGACTCAACTCAACGAGCACGGACATTCGCATCCATAAGTGAACCCAGACTCAACTCA
ACGAGCTCGGATGCCTAGTTACATCTCA
Found at i:14358960 original size:39 final size:40
Alignment explanation
Indices: 14358859--14359050 Score: 196
Period size: 40 Copynumber: 4.8 Consensus size: 40
14358849 TTGAATGATG
* * * *
14358859 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTACGTGAC-CAT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGA-GTTACTAAT
* *
14358898 ATCCGGACTAAGAT-CCGAAGGCATTTGTACGAGATACTAAT
1 -TCCGGGCTAAG-TCCCGAAGGCATTTGTACGAGTTACTAAT
* *
14358939 TCCGGGCTAAG-CCCGAAGGCATTTGTGCGAGTTACTAAA
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* *
14358978 TCCGGGTTAAGTCCCGAAGGCATTTGTGCGAGTTACT-AT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
* * *
14359017 AACCGGGCTATGTCCCGAAGGCATTTGAACGAGT
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGT
14359051 AGCTATATCC
Statistics
Matches: 129, Mismatches: 17, Indels: 12
0.82 0.11 0.08
Matches are distributed among these distances:
39 35 0.27
40 84 0.65
41 10 0.08
ACGTcount: A:0.25, C:0.23, G:0.27, T:0.25
Consensus pattern (40 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTACGAGTTACTAAT
Found at i:14358995 original size:79 final size:81
Alignment explanation
Indices: 14358859--14359043 Score: 227
Period size: 79 Copynumber: 2.3 Consensus size: 81
14358849 TTGAATGATG
* *
14358859 TCCGGGCTAAGTCCCGAAGGC-TTTGTGCTACGTGACCATATCCGGACTAAGATCCGAAGGCATT
1 TCCGGGCTAAGTCCCGAAGGCATTTGTGCGACGTGACCAAATCCGGACTAAGATCCGAAGGCATT
14358923 TGTACGAGATACTA-A
66 TGTACGAGATACTATA
* * **
14358938 TTCCGGGCTAAG-CCCGAAGGCATTTGTGCGA-GTTACTAAATCCGGGTTAAG-TCCCGAAGGCA
1 -TCCGGGCTAAGTCCCGAAGGCATTTGTGCGACGTGACCAAATCCGGACTAAGAT-CCGAAGGCA
* *
14359000 TTTGTGCGAGTTACTATA
64 TTTGTACGAGATACTATA
* *
14359018 ACCGGGCTATGTCCCGAAGGCATTTG
1 TCCGGGCTAAGTCCCGAAGGCATTTG
14359044 AACGAGTAGC
Statistics
Matches: 91, Mismatches: 10, Indels: 8
0.83 0.09 0.07
Matches are distributed among these distances:
78 1 0.01
79 56 0.62
80 34 0.37
ACGTcount: A:0.24, C:0.23, G:0.27, T:0.25
Consensus pattern (81 bp):
TCCGGGCTAAGTCCCGAAGGCATTTGTGCGACGTGACCAAATCCGGACTAAGATCCGAAGGCATT
TGTACGAGATACTATA
Found at i:14359065 original size:79 final size:79
Alignment explanation
Indices: 14358912--14359076 Score: 201
Period size: 79 Copynumber: 2.1 Consensus size: 79
14358902 GGACTAAGAT
* **
14358912 CCGAAGGCATTTGTACGAGATACTAATTCCGGGCTAAGCCCGAAGGCATTTGTGCGAGTTACTAA
1 CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
*
14358977 ATCCGGGTTAAGTC
66 ATCCGGGTTAAATC
* * *
14358991 CCGAAGGCATTTGTGCGAGTTACT-ATAACCGGGCTATGTCCCGAAGGCATTTGAACGAG-TAGC
1 CCGAAGGCATTTGTACGAGATACTAAT-ACCGGGCTAAG-CCCGAAGGCATTTGAACGAGTTA-C
* *
14359054 TATATCC-GGTTAAATT
63 TAAATCCGGGTTAAATC
14359070 CCGAAGG
1 CCGAAGG
14359077 TACGTGATTT
Statistics
Matches: 74, Mismatches: 9, Indels: 6
0.83 0.10 0.07
Matches are distributed among these distances:
78 2 0.03
79 47 0.64
80 25 0.34
ACGTcount: A:0.27, C:0.21, G:0.27, T:0.25
Consensus pattern (79 bp):
CCGAAGGCATTTGTACGAGATACTAATACCGGGCTAAGCCCGAAGGCATTTGAACGAGTTACTAA
ATCCGGGTTAAATC
Found at i:14363808 original size:46 final size:47
Alignment explanation
Indices: 14363702--14363817 Score: 135
Period size: 50 Copynumber: 2.4 Consensus size: 47
14363692 TGTCTTCGAC
** * *
14363702 ATGGACTTACATGAATTATTCCTGTCTCCAATGCCATATATATATATAAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCC--A-ATATATATAAT
* * *
14363752 ATGGGCTTACATGGCTCATTCCTGTCTCCAAAGCC-ATATATCTGAT
1 ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
14363798 ATGGACTTACATGGCTCATT
1 ATGGACTTACATGGCTCATT
14363818 TATGTCCTGT
Statistics
Matches: 58, Mismatches: 8, Indels: 4
0.83 0.11 0.06
Matches are distributed among these distances:
46 28 0.48
50 30 0.52
ACGTcount: A:0.28, C:0.22, G:0.15, T:0.35
Consensus pattern (47 bp):
ATGGACTTACATGGCTCATTCCTGTCTCCAAAGCCAATATATATAAT
Found at i:14365180 original size:17 final size:18
Alignment explanation
Indices: 14365158--14365191 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
14365148 TTTTAGGGAC
14365158 TAAATTGAA-GGCAAAAG
1 TAAATTGAAGGGCAAAAG
*
14365175 TAAATTTAAGGGCAAAA
1 TAAATTGAAGGGCAAAA
14365192 ATTGCAAATT
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 8 0.53
18 7 0.47
ACGTcount: A:0.53, C:0.06, G:0.21, T:0.21
Consensus pattern (18 bp):
TAAATTGAAGGGCAAAAG
Found at i:14365346 original size:14 final size:13
Alignment explanation
Indices: 14365327--14365364 Score: 58
Period size: 13 Copynumber: 2.8 Consensus size: 13
14365317 ATTTAATGTT
14365327 TAATTATATTAGGA
1 TAATTAT-TTAGGA
*
14365341 TAATTATTAAGGA
1 TAATTATTTAGGA
14365354 TAATTATTTAG
1 TAATTATTTAG
14365365 ATTTAATTTT
Statistics
Matches: 22, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 15 0.68
14 7 0.32
ACGTcount: A:0.42, C:0.00, G:0.13, T:0.45
Consensus pattern (13 bp):
TAATTATTTAGGA
Found at i:14367817 original size:33 final size:33
Alignment explanation
Indices: 14367779--14367855 Score: 102
Period size: 33 Copynumber: 2.4 Consensus size: 33
14367769 AGCTAATATG
*
14367779 CTTGATTTCCAACAGCAGATACAATGGCAAACT
1 CTTGATTTCCAACAGCAAATACAATGGCAAACT
* ***
14367812 GTTGATTTCCAACAGCAAATTTTATGGCAAACT
1 CTTGATTTCCAACAGCAAATACAATGGCAAACT
14367845 CTTG-TTTCCAA
1 CTTGATTTCCAA
14367856 AAGGAAACAA
Statistics
Matches: 38, Mismatches: 6, Indels: 1
0.84 0.13 0.02
Matches are distributed among these distances:
32 7 0.18
33 31 0.82
ACGTcount: A:0.32, C:0.22, G:0.14, T:0.31
Consensus pattern (33 bp):
CTTGATTTCCAACAGCAAATACAATGGCAAACT
Found at i:14369264 original size:15 final size:14
Alignment explanation
Indices: 14369246--14369322 Score: 61
Period size: 15 Copynumber: 5.3 Consensus size: 14
14369236 TTTTCTTAAT
14369246 TTTTATTATTTATTA
1 TTTTA-TATTTATTA
*
14369261 TTTTAT-TTCATT-
1 TTTTATATTTATTA
*
14369273 TTATTAGTATTTTTTA
1 TT-TTA-TATTTATTA
14369289 TTTTAT-TTTACCTTA
1 TTTTATATTTA--TTA
14369304 TTTTATTATTTATTA
1 TTTTA-TATTTATTA
14369319 TTTT
1 TTTT
14369323 GTTTTTGGAT
Statistics
Matches: 50, Mismatches: 4, Indels: 16
0.71 0.06 0.23
Matches are distributed among these distances:
12 2 0.04
13 11 0.22
14 3 0.06
15 27 0.54
16 3 0.06
17 4 0.08
ACGTcount: A:0.22, C:0.04, G:0.01, T:0.73
Consensus pattern (14 bp):
TTTTATATTTATTA
Found at i:14369283 original size:28 final size:30
Alignment explanation
Indices: 14369246--14369327 Score: 89
Period size: 30 Copynumber: 2.8 Consensus size: 30
14369236 TTTTCTTAAT
*
14369246 TTTTATTATTTATTATTTTA-TTT-CATT-
1 TTTTAGTATTTATTATTTTATTTTACATTA
* *
14369273 TTATTAGTATTTTTTATTTTATTTTACCTTA
1 TT-TTAGTATTTATTATTTTATTTTACATTA
* *
14369304 TTTTATTATTTATTATTTTGTTTT
1 TTTTAGTATTTATTATTTTATTTT
14369328 TGGATATTAA
Statistics
Matches: 45, Mismatches: 6, Indels: 5
0.80 0.11 0.09
Matches are distributed among these distances:
27 2 0.04
28 16 0.36
29 3 0.07
30 22 0.49
31 2 0.04
ACGTcount: A:0.21, C:0.04, G:0.02, T:0.73
Consensus pattern (30 bp):
TTTTAGTATTTATTATTTTATTTTACATTA
Found at i:14370043 original size:26 final size:26
Alignment explanation
Indices: 14370014--14370121 Score: 180
Period size: 26 Copynumber: 4.2 Consensus size: 26
14370004 TGGTACAAAT
*
14370014 TGATAATGGGTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
*
14370040 TGATAATGGATTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
14370066 TGATAATGGGTTAGGTAAATATTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
* *
14370092 TGATAATGGTTTAGGTAAATGTTCCA
1 TGATAATGGGTTAGGTAAATATTCCA
14370118 TGAT
1 TGAT
14370122 GGGCATTTCA
Statistics
Matches: 77, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
26 77 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.36
Consensus pattern (26 bp):
TGATAATGGGTTAGGTAAATATTCCA
Found at i:14372366 original size:27 final size:27
Alignment explanation
Indices: 14372336--14372513 Score: 180
Period size: 27 Copynumber: 6.6 Consensus size: 27
14372326 ATATTGAGCC
* *
14372336 CGCACACTCAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTACATAATCAACT
* *
14372363 CGCACACTTAGTGCTACGTAATCAAAT
1 CGCACACTTAGTGCTACATAATCAACT
*
14372390 CGCACACTTAGTGCTACATAGTCAGACT
1 CGCACACTTAGTGCTACATAATCA-ACT
** ** *
14372418 CGCACACTTAGTGCCGCATGGTCAATT
1 CGCACACTTAGTGCTACATAATCAACT
* **
14372445 CGCACACTTAGTGC-ATCATATTCATTT
1 CGCACACTTAGTGCTA-CATAATCAACT
* *
14372472 CGCACACTTAGTGCAACATAGTCGAA-T
1 CGCACACTTAGTGCTACATAATC-AACT
14372499 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
14372514 GTACAATTTA
Statistics
Matches: 129, Mismatches: 18, Indels: 8
0.83 0.12 0.05
Matches are distributed among these distances:
27 104 0.81
28 25 0.19
ACGTcount: A:0.29, C:0.28, G:0.16, T:0.27
Consensus pattern (27 bp):
CGCACACTTAGTGCTACATAATCAACT
Found at i:14372475 original size:82 final size:81
Alignment explanation
Indices: 14372357--14372512 Score: 224
Period size: 82 Copynumber: 1.9 Consensus size: 81
14372347 TGCTATATAA
* * *
14372357 TCAACTCGCACACTTAGTGCTACGTAATCAAATCGCACACTTAGTGCTACATAGTCAGACTCGCA
1 TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTC-GAATCGCA
14372422 CACTTAGTGCCGCATGG
65 CACTTAGTGCCGCATGG
* * **
14372439 TCAATTCGCACACTTAGTGC-ATCATATTCATTTCGCACACTTAGTGCAACATAGTCGAATCGCA
1 TCAACTCGCACACTTAGTGCTA-CATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCA
14372503 CACTTAGTGC
65 CACTTAGTGC
14372513 TGTACAATTT
Statistics
Matches: 66, Mismatches: 7, Indels: 3
0.87 0.09 0.04
Matches are distributed among these distances:
81 18 0.27
82 48 0.73
ACGTcount: A:0.28, C:0.28, G:0.17, T:0.27
Consensus pattern (81 bp):
TCAACTCGCACACTTAGTGCTACATAATCAAATCGCACACTTAGTGCAACATAGTCGAATCGCAC
ACTTAGTGCCGCATGG
Found at i:14374862 original size:26 final size:26
Alignment explanation
Indices: 14374796--14374871 Score: 89
Period size: 26 Copynumber: 2.8 Consensus size: 26
14374786 AAAAGCAGCT
* * *
14374796 AAATTACTATAATACCCCTATGTATGGA
1 AAATTACTATTATACCCCTA-G-GTGCA
*
14374824 AAATTACTGTTATACCCCTAGGTGCA
1 AAATTACTATTATACCCCTAGGTGCA
*
14374850 AAATTACCATTATACCCCTAGG
1 AAATTACTATTATACCCCTAGG
14374872 GTTACTTTTG
Statistics
Matches: 42, Mismatches: 6, Indels: 2
0.84 0.12 0.04
Matches are distributed among these distances:
26 23 0.55
27 1 0.02
28 18 0.43
ACGTcount: A:0.36, C:0.22, G:0.12, T:0.30
Consensus pattern (26 bp):
AAATTACTATTATACCCCTAGGTGCA
Found at i:14375072 original size:27 final size:27
Alignment explanation
Indices: 14374975--14375079 Score: 135
Period size: 27 Copynumber: 3.9 Consensus size: 27
14374965 AGGAAGCGTC
*
14374975 CTGGTGGCTATGCCACAATTATCTG-AT
1 CTGGTGGCTCTGCCACAA-TATCTGTAT
14375002 CTGGTGGCTCTGCCACATATATCTGT-T
1 CTGGTGGCTCTGCCACA-ATATCTGTAT
14375029 CTGGTGGCTCTGCCACAATATCTGTAT
1 CTGGTGGCTCTGCCACAATATCTGTAT
* *
14375056 CTGGTGACT-TCGTCACAATATCTG
1 CTGGTGGCTCT-GCCACAATATCTG
14375080 GCAGCCTCGC
Statistics
Matches: 71, Mismatches: 3, Indels: 8
0.87 0.04 0.10
Matches are distributed among these distances:
26 9 0.13
27 61 0.86
28 1 0.01
ACGTcount: A:0.19, C:0.25, G:0.22, T:0.34
Consensus pattern (27 bp):
CTGGTGGCTCTGCCACAATATCTGTAT
Found at i:14376836 original size:96 final size:97
Alignment explanation
Indices: 14376666--14376849 Score: 273
Period size: 96 Copynumber: 1.9 Consensus size: 97
14376656 TTTTTACGAA
* * ** *
14376666 TATGTTGGGCTGAGTAACTGGGGTGAGATGCTTGGCTGTCATCTCTTTTCGTGTCAAAAGCTTCG
1 TATGTTGGGCTGAGTAACCGGGGTGAGATGCTTGGCTGTCATCTCTCTTCGCATCAAAAGCTTCA
*
14376731 ATATGTTCTTAA-GAAAAATAAAAATTAGGAG
66 ATATATTCTTAAGGAAAAATAAAAATTAGGAG
*
14376762 TATGTTGGGCTGAGTAACCGGGGT-AGGATGCTTGGCTGTCATCTCTCTTCGCATCAAAAGGTTC
1 TATGTTGGGCTGAGTAACCGGGGTGA-GATGCTTGGCTGTCATCTCTCTTCGCATCAAAAGCTTC
*
14376826 AATATATTCTTAAGGAACAATAAA
65 AATATATTCTTAAGGAAAAATAAA
14376850 TAAATTTAAA
Statistics
Matches: 78, Mismatches: 8, Indels: 3
0.88 0.09 0.03
Matches are distributed among these distances:
95 1 0.01
96 68 0.87
97 9 0.12
ACGTcount: A:0.28, C:0.15, G:0.25, T:0.32
Consensus pattern (97 bp):
TATGTTGGGCTGAGTAACCGGGGTGAGATGCTTGGCTGTCATCTCTCTTCGCATCAAAAGCTTCA
ATATATTCTTAAGGAAAAATAAAAATTAGGAG
Found at i:14380658 original size:42 final size:41
Alignment explanation
Indices: 14380552--14380670 Score: 121
Period size: 43 Copynumber: 2.8 Consensus size: 41
14380542 TGTACCAATG
* * * *
14380552 CCATATCCCAAATATGGTCTTATATGAAATCTCGTATCGATA
1 CCATATCCCAGATATGGTCTTACACG-AATCTCATATCGATA
* * * *
14380594 CCAATAGCCCAGCTATGGTCTTACACGAAGTCTCATATTGATT
1 CC-ATATCCCAGATATGGTCTTACACGAA-TCTCATATCGATA
*
14380637 CCATATCCTAGATATGGTCTTACACGTAATCTCA
1 CCATATCCCAGATATGGTCTTACACG-AATCTCA
14380671 GTAACCCTAA
Statistics
Matches: 63, Mismatches: 11, Indels: 6
0.79 0.14 0.08
Matches are distributed among these distances:
42 30 0.48
43 33 0.52
ACGTcount: A:0.30, C:0.24, G:0.13, T:0.32
Consensus pattern (41 bp):
CCATATCCCAGATATGGTCTTACACGAATCTCATATCGATA
Found at i:14385731 original size:13 final size:13
Alignment explanation
Indices: 14385713--14385738 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14385703 TAGCATCAGT
14385713 AATCAAATTAAAC
1 AATCAAATTAAAC
14385726 AATCAAATTAAAC
1 AATCAAATTAAAC
14385739 CAGTTTTGCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 13 1.00
ACGTcount: A:0.62, C:0.15, G:0.00, T:0.23
Consensus pattern (13 bp):
AATCAAATTAAAC
Found at i:14389869 original size:90 final size:90
Alignment explanation
Indices: 14389714--14389880 Score: 289
Period size: 90 Copynumber: 1.9 Consensus size: 90
14389704 TTTAAGCTAT
* *
14389714 ATAACAAGTATAATGGGAGTTAATATATGGAATTCAAGCTCAAATGTACAATAATGCATGAAATT
1 ATAACAAGTATAATGGGAGTTAATATATGGAATTCAAGCTCAAATGCACAATAAAGCATGAAATT
14389779 ATGTTAATAATTCTAACCAATATGC
66 ATGTTAATAATTCTAACCAATATGC
* * *
14389804 ATAACAGGTATAATGGGAGTTAATATATGGAATTCAAGCTCAAATGCACAGTAAAGCATGCAATT
1 ATAACAAGTATAATGGGAGTTAATATATGGAATTCAAGCTCAAATGCACAATAAAGCATGAAATT
14389869 ATGTTAATAATT
66 ATGTTAATAATT
14389881 TTGACGAATA
Statistics
Matches: 72, Mismatches: 5, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
90 72 1.00
ACGTcount: A:0.43, C:0.11, G:0.16, T:0.31
Consensus pattern (90 bp):
ATAACAAGTATAATGGGAGTTAATATATGGAATTCAAGCTCAAATGCACAATAAAGCATGAAATT
ATGTTAATAATTCTAACCAATATGC
Found at i:14391967 original size:46 final size:46
Alignment explanation
Indices: 14391897--14392029 Score: 196
Period size: 46 Copynumber: 2.9 Consensus size: 46
14391887 ATAATCTCAC
* * *
14391897 CCATAATGAACTCGGAACGTAACTCAACGAGCTCGGGTG-TTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTT-ACAT
* *
14391943 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTTGCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTACAT
14391989 CCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGGATGC
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGTTCGGATGC
14392030 CTCATAATTC
Statistics
Matches: 79, Mismatches: 6, Indels: 3
0.90 0.07 0.03
Matches are distributed among these distances:
46 44 0.56
47 35 0.44
ACGTcount: A:0.32, C:0.26, G:0.22, T:0.20
Consensus pattern (46 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTACAT
Found at i:14392016 original size:47 final size:47
Alignment explanation
Indices: 14391897--14392071 Score: 203
Period size: 47 Copynumber: 3.7 Consensus size: 47
14391887 ATAATCTCAC
* * *
14391897 CCATAATGAACTCGGAACGTAACTCAACGAGCTCGGGTG-TTCACAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
* *
14391943 CCATAATGAACTCGGAACACAACTCAACGAGTTCGGATGCTT-GCAT
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
* *
14391989 CCATAAGTGAACTCGGAACGCAACTCAACGAGTTCGGATGCCTCATAAT
1 CCATAA-TGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCA-CAT
* * * * *
14392038 TC-TCACGAACTTGGAACGCAACTCAACCAGTTCG
1 CCATAATGAACTCGGAACGCAACTCAACGAGTTCG
14392072 AATCTCAATT
Statistics
Matches: 111, Mismatches: 14, Indels: 7
0.84 0.11 0.05
Matches are distributed among these distances:
46 44 0.40
47 62 0.56
48 2 0.02
49 3 0.03
ACGTcount: A:0.31, C:0.27, G:0.20, T:0.21
Consensus pattern (47 bp):
CCATAATGAACTCGGAACGCAACTCAACGAGTTCGGATGCTTCACAT
Found at i:14399810 original size:49 final size:50
Alignment explanation
Indices: 14399757--14399902 Score: 188
Period size: 49 Copynumber: 2.9 Consensus size: 50
14399747 GTAGCCAAAC
14399757 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAA-T
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
* * * * * **
14399806 TATCTGATACACGTAGTAGCCTGCACTTAGTACAACACACGTGATTAAAGT
1 TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGA-CCAAGT
*
14399857 TATC-GAGTACGCATAGTAGCCTGCACTTAGTACTACACATGCGACC
1 TATCTG-GTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACC
14399903 TAGCTACATA
Statistics
Matches: 79, Mismatches: 15, Indels: 5
0.80 0.15 0.05
Matches are distributed among these distances:
49 39 0.49
50 3 0.04
51 37 0.47
ACGTcount: A:0.30, C:0.25, G:0.18, T:0.27
Consensus pattern (50 bp):
TATCTGGTACGCATAGTAGCCTGCACTTAGTACTACACATGTGACCAAGT
Found at i:14403317 original size:131 final size:136
Alignment explanation
Indices: 14403078--14403369 Score: 328
Period size: 131 Copynumber: 2.2 Consensus size: 136
14403068 TGAGAGCTAG
*
14403078 TGTAAGACCATGTCTAGGACATGGCATTGACATTGATATGTGTGCCAGTGTAAGACCATATCTGG
1 TGTAAGACCATGTCTAGGACAT-GCATCGACATTGA-ATGTGTGCCAGTGTAAGACCATATCTGG
* * ** * * * * *
14403143 GATATGGCATCGTCCACGTTATGTGATTTCATGTAAGACCATATTTGGGATATGGCGTTGATATG
64 GACATGGCATCGGCCACGACATGAGATTTCATATAAGACCATATCTGGGATATGGCATCGATATG
*
14403208 -AGATTTCA
129 TAGA-TCCA
* * *
14403216 TGTAAGACCATGTCTAGGACATGCATCGATA-TG-A-G-GT-CCTGTGTAAGACCATGTCTGGGA
1 TGTAAGACCATGTCTAGGACATGCATCGACATTGAATGTGTGCCAGTGTAAGACCATATCTGGGA
* * * *
14403276 CATGGCATCGG-CACCGACATGAGATTTCGTATAATATCATATCTGGGATATGGCATCGGTATGT
66 CATGGCATCGGCCA-CGACATGAGATTTCATATAAGACCATATCTGGGATATGGCATCGATATGT
14403340 AGATCCA
130 AGATCCA
*
14403347 TGTAAGACCATGTCGAGGACATG
1 TGTAAGACCATGTCTAGGACATG
14403370 GTTTTGGTAT
Statistics
Matches: 133, Mismatches: 19, Indels: 11
0.82 0.12 0.07
Matches are distributed among these distances:
130 2 0.02
131 93 0.70
132 5 0.04
133 1 0.01
134 1 0.01
136 2 0.02
137 7 0.05
138 22 0.17
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.29
Consensus pattern (136 bp):
TGTAAGACCATGTCTAGGACATGCATCGACATTGAATGTGTGCCAGTGTAAGACCATATCTGGGA
CATGGCATCGGCCACGACATGAGATTTCATATAAGACCATATCTGGGATATGGCATCGATATGTA
GATCCA
Found at i:14406282 original size:42 final size:42
Alignment explanation
Indices: 14406218--14406299 Score: 110
Period size: 42 Copynumber: 2.0 Consensus size: 42
14406208 ACTAATTATG
* * * **
14406218 TGCACTTAGTGTGCGAGGTCGAGATAGCTTTGGCTATATATT
1 TGCACTTAATGTGCGAGATCGAGATAACTTCAGCTATATATT
*
14406260 TGCACTTAATGTGCTAGATCGAGATAACTTCAGCTATATA
1 TGCACTTAATGTGCGAGATCGAGATAACTTCAGCTATATA
14406300 AATATATATT
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
42 34 1.00
ACGTcount: A:0.27, C:0.16, G:0.23, T:0.34
Consensus pattern (42 bp):
TGCACTTAATGTGCGAGATCGAGATAACTTCAGCTATATATT
Found at i:14406307 original size:50 final size:50
Alignment explanation
Indices: 14406252--14406346 Score: 145
Period size: 50 Copynumber: 1.9 Consensus size: 50
14406242 TAGCTTTGGC
* *
14406252 TATATATTTGCACTTAATGTGCTAGATCGAGATAACTTCAGCTATATAAA
1 TATATATTTGCACTTAATGTGCGAGATCGAGACAACTTCAGCTATATAAA
* * *
14406302 TATATATTTGCACTTAGTGTGCGAGATTGATACAACTTCAGCTAT
1 TATATATTTGCACTTAATGTGCGAGATCGAGACAACTTCAGCTAT
14406347 TTATTTGGCA
Statistics
Matches: 40, Mismatches: 5, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
50 40 1.00
ACGTcount: A:0.33, C:0.15, G:0.16, T:0.37
Consensus pattern (50 bp):
TATATATTTGCACTTAATGTGCGAGATCGAGACAACTTCAGCTATATAAA
Found at i:14417859 original size:26 final size:27
Alignment explanation
Indices: 14417830--14417889 Score: 68
Period size: 27 Copynumber: 2.3 Consensus size: 27
14417820 CCACATATAT
*
14417830 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * * *
14417856 ATATTTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
14417883 ATATCTG
1 ATATCTG
14417890 GCAGCTTCGC
Statistics
Matches: 27, Mismatches: 6, Indels: 1
0.79 0.18 0.03
Matches are distributed among these distances:
26 7 0.26
27 20 0.74
ACGTcount: A:0.22, C:0.22, G:0.20, T:0.37
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:14426180 original size:49 final size:49
Alignment explanation
Indices: 14426015--14426252 Score: 287
Period size: 49 Copynumber: 4.8 Consensus size: 49
14426005 TGAGGTCGCA
* * * * * *
14426015 TGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAA-T-TGGTCACG
* * **
14426066 TGTGTAGTACTAAGTACAGGCTACTACGTGTATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATT-GGTCACG
* *
14426116 TGTGTAGTACTAAGTGCAGGCTGCTACGTGTACCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
14426165 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCAGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
* * *
14426214 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATA
14426253 GCTTTGGCTA
Statistics
Matches: 163, Mismatches: 23, Indels: 4
0.86 0.12 0.02
Matches are distributed among these distances:
49 89 0.55
50 43 0.26
51 31 0.19
ACGTcount: A:0.26, C:0.18, G:0.27, T:0.29
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATAATTGGTCACG
Found at i:14426196 original size:99 final size:100
Alignment explanation
Indices: 14426008--14426247 Score: 304
Period size: 99 Copynumber: 2.4 Consensus size: 100
14425998 TCTATTGTGA
* * *
14426008 GGTCGCATGTGTAGTACTAAGTGTAGGCTACTATGCGTACCCGAAAACTGTGATCACGTGTGTAG
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
* **
14426073 TACTAAGTACAGGCTACTACGTGTATCAGATGGTT
66 TACTAAGTACAGGCTACTACGTGTACCAGATAATT
* * * * * *
14426108 AGGTCACGTGTGTAGTACTAAGTGCAGGCTGCTACGTGTACCGGATAA-T-TGGTCACGTGTGTA
1 -GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTA
* *
14426171 GTACTAAGTGCAGGCTACTATGTGTACCAGATAATT
65 GTACTAAGTACAGGCTACTACGTGTACCAGATAATT
* * *
14426207 GGTCGCATGTGTAGTACTATGTGCAGGCTACTATGCGTACC
1 GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACC
14426248 AGATAGCTTT
Statistics
Matches: 119, Mismatches: 20, Indels: 3
0.84 0.14 0.02
Matches are distributed among these distances:
98 35 0.29
99 44 0.37
100 1 0.01
101 39 0.33
ACGTcount: A:0.25, C:0.18, G:0.28, T:0.29
Consensus pattern (100 bp):
GGTCACATGTGTAGTACTAAGTGCAGGCTACTACGCGTACCCGAAAACTGTGATCACGTGTGTAG
TACTAAGTACAGGCTACTACGTGTACCAGATAATT
Found at i:14429272 original size:15 final size:15
Alignment explanation
Indices: 14429252--14429286 Score: 61
Period size: 15 Copynumber: 2.3 Consensus size: 15
14429242 TCGTATCTTA
14429252 GGTTTCTTTACTCTG
1 GGTTTCTTTACTCTG
*
14429267 GGTTTCTTTATTCTG
1 GGTTTCTTTACTCTG
14429282 GGTTT
1 GGTTT
14429287 TTCTATCTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
15 19 1.00
ACGTcount: A:0.06, C:0.14, G:0.23, T:0.57
Consensus pattern (15 bp):
GGTTTCTTTACTCTG
Found at i:14429318 original size:14 final size:15
Alignment explanation
Indices: 14429254--14429318 Score: 55
Period size: 15 Copynumber: 4.4 Consensus size: 15
14429244 GTATCTTAGG
* *
14429254 TTTCTTTACTCTGGG
1 TTTCTTTATTCTGGT
14429269 TTTCTTTATTCTGGGT
1 TTTCTTTATTCT-GGT
* *
14429285 TTT-TCTA-TCTTGGA
1 TTTCTTTATTC-TGGT
14429299 TTTCTTTATTC-GGT
1 TTTCTTTATTCTGGT
14429313 TTTCTT
1 TTTCTT
14429319 ATTATCTTTA
Statistics
Matches: 40, Mismatches: 6, Indels: 9
0.73 0.11 0.16
Matches are distributed among these distances:
14 15 0.38
15 18 0.45
16 7 0.17
ACGTcount: A:0.08, C:0.15, G:0.15, T:0.62
Consensus pattern (15 bp):
TTTCTTTATTCTGGT
Found at i:14431614 original size:49 final size:49
Alignment explanation
Indices: 14431439--14431676 Score: 278
Period size: 49 Copynumber: 4.8 Consensus size: 49
14431429 TGAGGTCGCA
* * * *
14431439 TGTGTAGTACTAAGTGCAGGCTACTATGCGTACCCGAAAACTGTGATCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAA-T-TGGTCACG
* * * * **
14431490 TGTGTAGTACTAAGTGTAGGCTACTATGTATATCAGATGGTTAGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATT-GGTCACG
* * *
14431540 TGTGTAGTACTAAGTGTAGGGTACTATGTGTATCGGATAATTGGTCACG
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACG
* * *
14431589 TGTGTAGTACTAAGTGCAGGCTACTACGTGTACCGGATAATTGGTCGCA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACG
* * *
14431638 TGTGTAGTACTATGTGCAGGCTACTATGCGTACCAGATA
1 TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATA
14431677 GCTTTGGCTA
Statistics
Matches: 162, Mismatches: 24, Indels: 4
0.85 0.13 0.02
Matches are distributed among these distances:
49 86 0.53
50 44 0.27
51 32 0.20
ACGTcount: A:0.26, C:0.16, G:0.28, T:0.31
Consensus pattern (49 bp):
TGTGTAGTACTAAGTGCAGGCTACTATGTGTACCGGATAATTGGTCACG
Found at i:14437810 original size:33 final size:27
Alignment explanation
Indices: 14437746--14437800 Score: 110
Period size: 27 Copynumber: 2.0 Consensus size: 27
14437736 GTCTATAATG
14437746 TTTATTGATATATCTTGAATTAAAACA
1 TTTATTGATATATCTTGAATTAAAACA
14437773 TTTATTGATATATCTTGAATTAAAACA
1 TTTATTGATATATCTTGAATTAAAACA
14437800 T
1 T
14437801 AGGCATTTAT
Statistics
Matches: 28, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.40, C:0.07, G:0.07, T:0.45
Consensus pattern (27 bp):
TTTATTGATATATCTTGAATTAAAACA
Found at i:14439123 original size:20 final size:22
Alignment explanation
Indices: 14439087--14439128 Score: 70
Period size: 20 Copynumber: 2.0 Consensus size: 22
14439077 TAGGAGAGTG
14439087 AAAGGAACGAGAAATGGGCCAA
1 AAAGGAACGAGAAATGGGCCAA
14439109 AAAGGAA-GA-AAATGGGCCAA
1 AAAGGAACGAGAAATGGGCCAA
14439129 CGTACGAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 2
0.91 0.00 0.09
Matches are distributed among these distances:
20 11 0.55
21 2 0.10
22 7 0.35
ACGTcount: A:0.52, C:0.12, G:0.31, T:0.05
Consensus pattern (22 bp):
AAAGGAACGAGAAATGGGCCAA
Found at i:14445481 original size:47 final size:48
Alignment explanation
Indices: 14445417--14445539 Score: 189
Period size: 47 Copynumber: 2.6 Consensus size: 48
14445407 ATCCATAAGT
14445417 GAACTCGGACTCAACTCAATGAGTTC-GGATGCCTAGTTACATTTCAC
1 GAACTCGGACTCAACTCAATGAGTTCTGGATGCCTAGTTACATTTCAC
* * *
14445464 GAACTCAGACTCAACTCAACGAG-TCTGGATGCCTAGTTACATTTCAT
1 GAACTCGGACTCAACTCAATGAGTTCTGGATGCCTAGTTACATTTCAC
*
14445511 GAACTCGGCCTCAACTCAATGAGTT-TGGA
1 GAACTCGGACTCAACTCAATGAGTTCTGGA
14445540 CATTCGCATC
Statistics
Matches: 68, Mismatches: 6, Indels: 4
0.87 0.08 0.05
Matches are distributed among these distances:
46 2 0.03
47 65 0.96
48 1 0.01
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.27
Consensus pattern (48 bp):
GAACTCGGACTCAACTCAATGAGTTCTGGATGCCTAGTTACATTTCAC
Found at i:14446042 original size:30 final size:30
Alignment explanation
Indices: 14446008--14446067 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
14445998 ATTTAATACG
14446008 AACTTTGGAAAAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
* * *
14446038 AACTTTTGCATAATTACACTTTTGCCCCTA
1 AACTTTGGAAAAATTACACTTTTGCCCCTA
14446068 GGCTTGGGAA
Statistics
Matches: 27, Mismatches: 3, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
30 27 1.00
ACGTcount: A:0.30, C:0.25, G:0.08, T:0.37
Consensus pattern (30 bp):
AACTTTGGAAAAATTACACTTTTGCCCCTA
Found at i:14446156 original size:43 final size:43
Alignment explanation
Indices: 14446095--14446179 Score: 161
Period size: 43 Copynumber: 2.0 Consensus size: 43
14446085 TTATTCCTTA
14446095 TTCTTATGTTTTATAACATGCTGATCATTTTTCCCTTCTATGG
1 TTCTTATGTTTTATAACATGCTGATCATTTTTCCCTTCTATGG
*
14446138 TTCTTATGTTTTATAACATTCTGATCATTTTTCCCTTCTATG
1 TTCTTATGTTTTATAACATGCTGATCATTTTTCCCTTCTATG
14446180 TCAACATCAA
Statistics
Matches: 41, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
43 41 1.00
ACGTcount: A:0.19, C:0.19, G:0.09, T:0.53
Consensus pattern (43 bp):
TTCTTATGTTTTATAACATGCTGATCATTTTTCCCTTCTATGG
Found at i:14453106 original size:46 final size:46
Alignment explanation
Indices: 14453039--14453675 Score: 808
Period size: 46 Copynumber: 13.6 Consensus size: 46
14453029 AACCCTCCCC
14453039 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
* * *
14453085 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATTTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCA-TCCA
* * * * *
14453136 -CA---AACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTT-ACAT--T
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCATCCA
* * * * * *
14453180 TCA-CGAACTCGGAGTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
* * * *
14453225 TAAGTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTT-ACATTTCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGG--G-C--GTTCGCA-TCCA
* *
14453276 CGAACTCGGACACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 -TAAGT--GA-ACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
14453326 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
14453372 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
14453418 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
14453464 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
14453510 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
14453556 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
* * *
14453602 TAAGTGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCA
1 TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
14453648 TAAGTGAACTCGGACTCAACTCAACGAG
1 TAAGTGAACTCGGACTCAACTCAACGAG
14453676 TTCGAATGCT
Statistics
Matches: 536, Mismatches: 31, Indels: 48
0.87 0.05 0.08
Matches are distributed among these distances:
42 2 0.00
43 3 0.01
44 1 0.00
45 4 0.01
46 399 0.74
47 66 0.12
48 1 0.00
49 5 0.01
50 11 0.02
51 13 0.02
52 4 0.01
53 1 0.00
54 2 0.00
55 24 0.04
ACGTcount: A:0.28, C:0.29, G:0.22, T:0.21
Consensus pattern (46 bp):
TAAGTGAACTCGGACTCAACTCAACGAGCTCGGGCGTTCGCATCCA
Found at i:14453158 original size:47 final size:47
Alignment explanation
Indices: 14453091--14453286 Score: 233
Period size: 47 Copynumber: 4.2 Consensus size: 47
14453081 TCCATAAGTG
14453091 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACA
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACA
* *
14453138 AACTCGGACTCAACTCAACGAGTTTGGATGCCTAGTTACATTTCACG
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACA
* * * *
14453185 AACTCGGAGTCAACTCAACGAGTTCGGA---C-A-TTCGCA-TCCATAA
1 AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTT-ACATTTCA-CA
* *
14453228 GTGAACTCGGACTCAACTCAATGAGTTCGGATGCCTAGTTACATTTCACG
1 ---AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACA
14453278 AACTCGGAC
1 AACTCGGAC
14453287 ACTCGGACTC
Statistics
Matches: 124, Mismatches: 14, Indels: 22
0.77 0.09 0.14
Matches are distributed among these distances:
42 5 0.04
43 3 0.02
44 1 0.01
46 26 0.21
47 80 0.65
49 1 0.01
50 3 0.02
51 5 0.04
ACGTcount: A:0.29, C:0.27, G:0.19, T:0.25
Consensus pattern (47 bp):
AACTCGGACTCAACTCAACGAGTTCGGATGCCTAGTTACATTTCACA
Found at i:14456809 original size:28 final size:28
Alignment explanation
Indices: 14456778--14456860 Score: 105
Period size: 28 Copynumber: 2.9 Consensus size: 28
14456768 ATGCATACGA
*
14456778 CCCACTAGGCCCAAACTCATTCATATGG
1 CCCATTAGGCCCAAACTCATTCATATGG
* *
14456806 CCCATTAGGCCCAAA-TCACATCGTATGG
1 CCCATTAGGCCCAAACTCA-TTCATATGG
*
14456834 CCCATTAGGCCCAAATCACATTCATAT
1 CCCATTAGGCCCAAA-CTCATTCATAT
14456861 TCATGCTTTC
Statistics
Matches: 46, Mismatches: 6, Indels: 5
0.81 0.11 0.09
Matches are distributed among these distances:
27 3 0.07
28 36 0.78
29 5 0.11
30 2 0.04
ACGTcount: A:0.30, C:0.34, G:0.13, T:0.23
Consensus pattern (28 bp):
CCCATTAGGCCCAAACTCATTCATATGG
Found at i:14466186 original size:28 final size:28
Alignment explanation
Indices: 14466154--14466218 Score: 94
Period size: 28 Copynumber: 2.3 Consensus size: 28
14466144 ATTTACTCGA
*
14466154 ATACCCCTATGTATGCAAAATTACCATT
1 ATACCCCTATGTATGCAAAATGACCATT
* *
14466182 ATACCCCTATGTATGCTAAATGACCTTT
1 ATACCCCTATGTATGCAAAATGACCATT
*
14466210 ATGCCCCTA
1 ATACCCCTA
14466219 GGGTTAATTT
Statistics
Matches: 33, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
28 33 1.00
ACGTcount: A:0.31, C:0.28, G:0.09, T:0.32
Consensus pattern (28 bp):
ATACCCCTATGTATGCAAAATGACCATT
Found at i:14466397 original size:29 final size:29
Alignment explanation
Indices: 14466334--14466397 Score: 78
Period size: 29 Copynumber: 2.2 Consensus size: 29
14466324 CTTGTGGCTA
*
14466334 TGCCA-AAAATTATCTGTTCTGGTGGCAC
1 TGCCACAAAATTATCTGTTCTGGTGACAC
*
14466362 TGCCACAAAA-TATCTGTATCTGGTGACTC
1 TGCCACAAAATTATCTGT-TCTGGTGACAC
*
14466391 TGTCACA
1 TGCCACA
14466398 TTTTCTGTAT
Statistics
Matches: 31, Mismatches: 3, Indels: 3
0.84 0.08 0.08
Matches are distributed among these distances:
28 12 0.39
29 19 0.61
ACGTcount: A:0.27, C:0.23, G:0.19, T:0.31
Consensus pattern (29 bp):
TGCCACAAAATTATCTGTTCTGGTGACAC
Found at i:14466879 original size:18 final size:18
Alignment explanation
Indices: 14466840--14466880 Score: 55
Period size: 18 Copynumber: 2.3 Consensus size: 18
14466830 TAATAAGGCC
* *
14466840 TTTTAATTATTTTTATGG
1 TTTTAATTACTTTTATGA
*
14466858 TTTTAATTACTTTTATTA
1 TTTTAATTACTTTTATGA
14466876 TTTTA
1 TTTTA
14466881 TTTTACTATG
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
18 20 1.00
ACGTcount: A:0.24, C:0.02, G:0.05, T:0.68
Consensus pattern (18 bp):
TTTTAATTACTTTTATGA
Found at i:14467499 original size:11 final size:10
Alignment explanation
Indices: 14467471--14467504 Score: 50
Period size: 10 Copynumber: 3.3 Consensus size: 10
14467461 AGCCTGTAAG
14467471 TATTCTGAAT
1 TATTCTGAAT
*
14467481 TTTTCTGAAT
1 TATTCTGAAT
14467491 ATATTCTGAAT
1 -TATTCTGAAT
14467502 TAT
1 TAT
14467505 CTATCTGTAC
Statistics
Matches: 21, Mismatches: 2, Indels: 2
0.84 0.08 0.08
Matches are distributed among these distances:
10 12 0.57
11 9 0.43
ACGTcount: A:0.29, C:0.09, G:0.09, T:0.53
Consensus pattern (10 bp):
TATTCTGAAT
Found at i:14470289 original size:28 final size:27
Alignment explanation
Indices: 14470232--14470383 Score: 250
Period size: 27 Copynumber: 5.6 Consensus size: 27
14470222 TAAATTGTGC
*
14470232 AGCACTAAGTGTGCGAATTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
14470259 AGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
14470287 AGCACTAAGTGTGCGAGTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
14470314 AGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAG-TTGACTATGT
*
14470342 AGCACTAAGTGTGCGAGTTGACTATAT
1 AGCACTAAGTGTGCGAGTTGACTATGT
*
14470369 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
14470384 GACTTAATAT
Statistics
Matches: 118, Mismatches: 5, Indels: 4
0.93 0.04 0.03
Matches are distributed among these distances:
27 65 0.55
28 53 0.45
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGAGTTGACTATGT
Found at i:14470296 original size:55 final size:55
Alignment explanation
Indices: 14470232--14470383 Score: 268
Period size: 55 Copynumber: 2.8 Consensus size: 55
14470222 TAAATTGTGC
*
14470232 AGCACTAAGTGTGCGAATTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
*
14470287 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGATTATGT
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
* *
14470342 AGCACTAAGTGTGCGAGTTGACTATATAGCACTGAGTGTGCG
1 AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCG
14470384 GACTTAATAT
Statistics
Matches: 93, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
55 93 1.00
ACGTcount: A:0.26, C:0.14, G:0.29, T:0.30
Consensus pattern (55 bp):
AGCACTAAGTGTGCGAGTTGACTATGTAGCACTAAGTGTGCGAGTTTGACTATGT
Found at i:14487181 original size:21 final size:21
Alignment explanation
Indices: 14487156--14487199 Score: 88
Period size: 21 Copynumber: 2.1 Consensus size: 21
14487146 TCAATACACA
14487156 TTCAAACATATATTTATACAT
1 TTCAAACATATATTTATACAT
14487177 TTCAAACATATATTTATACAT
1 TTCAAACATATATTTATACAT
14487198 TT
1 TT
14487200 GAATCATCTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 23 1.00
ACGTcount: A:0.41, C:0.14, G:0.00, T:0.45
Consensus pattern (21 bp):
TTCAAACATATATTTATACAT
Found at i:14491863 original size:39 final size:39
Alignment explanation
Indices: 14491807--14491888 Score: 137
Period size: 39 Copynumber: 2.1 Consensus size: 39
14491797 AATTATGTTA
*
14491807 CCAGCACAAAGCTTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
* *
14491846 CCAGCACGAAGCCTGCGGGACTTTAGCCGGGATACATTT
1 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
14491885 CCAG
1 CCAG
14491889 TGTCTTGCTT
Statistics
Matches: 40, Mismatches: 3, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 40 1.00
ACGTcount: A:0.24, C:0.29, G:0.26, T:0.21
Consensus pattern (39 bp):
CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
Found at i:14497498 original size:39 final size:38
Alignment explanation
Indices: 14497454--14497573 Score: 177
Period size: 39 Copynumber: 3.1 Consensus size: 38
14497444 AATTATGTTA
14497454 CCAGCACAAAGCCTGCGGGACTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGG-CTTTAGCCCGGATACATTT
* * *
14497493 CCAGCACGAAGCCTGCAGGTCTTTAGCCCAGATACATTT
1 CCAGCACAAAGCCTGC-GGGCTTTAGCCCGGATACATTT
* *
14497532 CTAGCACAAAGCCTGCGGGTTTTAGCCCGGATACATTT
1 CCAGCACAAAGCCTGCGGGCTTTAGCCCGGATACATTT
14497570 CCAG
1 CCAG
14497574 TGTCTTACTT
Statistics
Matches: 71, Mismatches: 9, Indels: 3
0.86 0.11 0.04
Matches are distributed among these distances:
38 22 0.31
39 47 0.66
40 2 0.03
ACGTcount: A:0.25, C:0.30, G:0.23, T:0.23
Consensus pattern (38 bp):
CCAGCACAAAGCCTGCGGGCTTTAGCCCGGATACATTT
Found at i:14511439 original size:39 final size:39
Alignment explanation
Indices: 14511395--14511515 Score: 206
Period size: 39 Copynumber: 3.1 Consensus size: 39
14511385 AATTATGTTA
* *
14511395 CCAGCACAAAGCCTGCGGGACTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTGCGGGTCTTTAGCCTGGATACATTT
**
14511434 CCAGCACGAAGCCTGCGGGTCTTTAGCCCAGATACATTT
1 CCAGCACGAAGCCTGCGGGTCTTTAGCCTGGATACATTT
14511473 CCAGCACGAAGCCTGCGGGTCTTTAGCCTGGATACATTT
1 CCAGCACGAAGCCTGCGGGTCTTTAGCCTGGATACATTT
14511512 CCAG
1 CCAG
14511516 TGTCTTGCTT
Statistics
Matches: 76, Mismatches: 6, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
39 76 1.00
ACGTcount: A:0.23, C:0.30, G:0.24, T:0.23
Consensus pattern (39 bp):
CCAGCACGAAGCCTGCGGGTCTTTAGCCTGGATACATTT
Found at i:14518818 original size:19 final size:19
Alignment explanation
Indices: 14518794--14518833 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
14518784 GGTAACAGGC
14518794 TCCACTTCTCAAATGACAT
1 TCCACTTCTCAAATGACAT
14518813 TCCACTTCTCAAATGACAT
1 TCCACTTCTCAAATGACAT
14518832 TC
1 TC
14518834 TCCAAAATGA
Statistics
Matches: 21, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 21 1.00
ACGTcount: A:0.30, C:0.33, G:0.05, T:0.33
Consensus pattern (19 bp):
TCCACTTCTCAAATGACAT
Done.