Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: At_chr5
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: 55438857
ACGTcount: A:0.32, C:0.17, G:0.17, T:0.32
Warning! 1812582 characters in sequence are not A, C, G, or T
File 45 of 167
Found at i:13886431 original size:18 final size:18
Alignment explanation
Indices: 13886408--13886442 Score: 52
Period size: 18 Copynumber: 1.9 Consensus size: 18
13886398 ATGCGAATAT
*
13886408 ATAAAAACAATAAATAAC
1 ATAAAAACAACAAATAAC
*
13886426 ATAAAAATAACAAATAA
1 ATAAAAACAACAAATAA
13886443 TTTATGAGAT
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
18 15 1.00
ACGTcount: A:0.74, C:0.09, G:0.00, T:0.17
Consensus pattern (18 bp):
ATAAAAACAACAAATAAC
Found at i:13886622 original size:17 final size:19
Alignment explanation
Indices: 13886600--13886635 Score: 58
Period size: 17 Copynumber: 2.0 Consensus size: 19
13886590 TTAAACGATT
13886600 AATATA-TATAT-ATATAA
1 AATATACTATATGATATAA
13886617 AATATACTATATGATATAA
1 AATATACTATATGATATAA
13886636 TAACTTAATA
Statistics
Matches: 17, Mismatches: 0, Indels: 2
0.89 0.00 0.11
Matches are distributed among these distances:
17 6 0.35
18 5 0.29
19 6 0.35
ACGTcount: A:0.56, C:0.03, G:0.03, T:0.39
Consensus pattern (19 bp):
AATATACTATATGATATAA
Found at i:13886796 original size:7 final size:7
Alignment explanation
Indices: 13886786--13886821 Score: 54
Period size: 7 Copynumber: 5.0 Consensus size: 7
13886776 TTATATGTAC
13886786 TAATAAA
1 TAATAAA
13886793 TAATAAA
1 TAATAAA
13886800 TAATAGAA
1 TAATA-AA
*
13886808 TAATATA
1 TAATAAA
13886815 TAATAAA
1 TAATAAA
13886822 ATAAAGATAA
Statistics
Matches: 26, Mismatches: 2, Indels: 2
0.87 0.07 0.07
Matches are distributed among these distances:
7 19 0.73
8 7 0.27
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (7 bp):
TAATAAA
Found at i:13886811 original size:15 final size:14
Alignment explanation
Indices: 13886786--13886821 Score: 54
Period size: 15 Copynumber: 2.5 Consensus size: 14
13886776 TTATATGTAC
13886786 TAATAAATAATAAA
1 TAATAAATAATAAA
*
13886800 TAATAGAATAATATA
1 TAATA-AATAATAAA
13886815 TAATAAA
1 TAATAAA
13886822 ATAAAGATAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 7 0.35
15 13 0.65
ACGTcount: A:0.67, C:0.00, G:0.03, T:0.31
Consensus pattern (14 bp):
TAATAAATAATAAA
Found at i:13886870 original size:17 final size:17
Alignment explanation
Indices: 13886850--13886882 Score: 66
Period size: 17 Copynumber: 1.9 Consensus size: 17
13886840 ATAATATATA
13886850 TAATAAAATATATAATG
1 TAATAAAATATATAATG
13886867 TAATAAAATATATAAT
1 TAATAAAATATATAAT
13886883 AAAATACAAA
Statistics
Matches: 16, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
17 16 1.00
ACGTcount: A:0.61, C:0.00, G:0.03, T:0.36
Consensus pattern (17 bp):
TAATAAAATATATAATG
Found at i:13886888 original size:17 final size:17
Alignment explanation
Indices: 13886851--13886894 Score: 61
Period size: 17 Copynumber: 2.5 Consensus size: 17
13886841 TAATATATAT
**
13886851 AATAAAATATATAATGT
1 AATAAAATATATAATAA
13886868 AATAAAATATATAATAA
1 AATAAAATATATAATAA
13886885 AATACAAATA
1 AATA-AAATA
13886895 ACTTGATAAA
Statistics
Matches: 24, Mismatches: 2, Indels: 1
0.89 0.07 0.04
Matches are distributed among these distances:
17 19 0.79
18 5 0.21
ACGTcount: A:0.66, C:0.02, G:0.02, T:0.30
Consensus pattern (17 bp):
AATAAAATATATAATAA
Found at i:13886960 original size:19 final size:19
Alignment explanation
Indices: 13886938--13886975 Score: 58
Period size: 19 Copynumber: 2.0 Consensus size: 19
13886928 TTTTACATGT
* *
13886938 ATAAATAATGTTTATAAAA
1 ATAAATAATATATATAAAA
13886957 ATAAATAATATATATAAAA
1 ATAAATAATATATATAAAA
13886976 TATTTAAAAT
Statistics
Matches: 17, Mismatches: 2, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
19 17 1.00
ACGTcount: A:0.63, C:0.00, G:0.03, T:0.34
Consensus pattern (19 bp):
ATAAATAATATATATAAAA
Found at i:13888771 original size:27 final size:27
Alignment explanation
Indices: 13888726--13888777 Score: 88
Period size: 27 Copynumber: 1.9 Consensus size: 27
13888716 AGAAAAAAAC
13888726 TAAATTATTATTTTAATATAAATTAAGT
1 TAAATTATTATTTTAATAT-AATTAAGT
13888754 TAAATTATT-TTTTAATATAATTAA
1 TAAATTATTATTTTAATATAATTAA
13888778 AATGAATTGT
Statistics
Matches: 24, Mismatches: 0, Indels: 2
0.92 0.00 0.08
Matches are distributed among these distances:
26 6 0.25
27 9 0.38
28 9 0.38
ACGTcount: A:0.46, C:0.00, G:0.02, T:0.52
Consensus pattern (27 bp):
TAAATTATTATTTTAATATAATTAAGT
Found at i:13892498 original size:42 final size:41
Alignment explanation
Indices: 13892451--13892542 Score: 103
Period size: 42 Copynumber: 2.2 Consensus size: 41
13892441 CCAACCTTTC
* * * *
13892451 TGGGTTTCAATTCAGCTCTTTTGAGCTTTAGTTTAACCGTTA
1 TGGGTTTC-ATTCAGCTCCTCTGAGCTTCAGTTTAACCCTTA
* *
13892493 TGGGTTTTCGTTCAGCTCCTCTGAGCTTCCGTTTAACCCTTA
1 TGGG-TTTCATTCAGCTCCTCTGAGCTTCAGTTTAACCCTTA
*
13892535 CGGGTTTC
1 TGGGTTTC
13892543 TGTTTAGCAC
Statistics
Matches: 42, Mismatches: 7, Indels: 3
0.81 0.13 0.06
Matches are distributed among these distances:
41 4 0.10
42 34 0.81
43 4 0.10
ACGTcount: A:0.14, C:0.23, G:0.21, T:0.42
Consensus pattern (41 bp):
TGGGTTTCATTCAGCTCCTCTGAGCTTCAGTTTAACCCTTA
Found at i:13892753 original size:22 final size:23
Alignment explanation
Indices: 13892727--13892772 Score: 60
Period size: 23 Copynumber: 2.0 Consensus size: 23
13892717 CAACCAAACC
13892727 AATTCA-ACATATTT-TCAAGATA
1 AATTCATACATATTTGT-AAGATA
*
13892749 AATTCATGCATATTTGTAAGATA
1 AATTCATACATATTTGTAAGATA
13892772 A
1 A
13892773 CATCATTACA
Statistics
Matches: 21, Mismatches: 1, Indels: 3
0.84 0.04 0.12
Matches are distributed among these distances:
22 6 0.29
23 14 0.67
24 1 0.05
ACGTcount: A:0.43, C:0.11, G:0.09, T:0.37
Consensus pattern (23 bp):
AATTCATACATATTTGTAAGATA
Found at i:13894006 original size:76 final size:76
Alignment explanation
Indices: 13893904--13894051 Score: 260
Period size: 76 Copynumber: 1.9 Consensus size: 76
13893894 ATCTAGATAT
13893904 TTCCCATTTAGTCCTAGTTTTATTTAGTTAATTTTACAATATTCCAAATTTGCCCTTAATTTATC
1 TTCCCATTTAGTCCTAGTTTTATTTAGTTAATTTTACAATATTCCAAATTTGCCCTTAATTTATC
13893969 AATTTTCCTGC
66 AATTTTCCTGC
* * * *
13893980 TTCCTATTTAGTCCTAGTTTTATTTAGTTAATTTTGCAATATTCCAATTTTGCTCTTAATTTATC
1 TTCCCATTTAGTCCTAGTTTTATTTAGTTAATTTTACAATATTCCAAATTTGCCCTTAATTTATC
13894045 AATTTTC
66 AATTTTC
13894052 TCGCTGATTT
Statistics
Matches: 68, Mismatches: 4, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
76 68 1.00
ACGTcount: A:0.24, C:0.18, G:0.07, T:0.51
Consensus pattern (76 bp):
TTCCCATTTAGTCCTAGTTTTATTTAGTTAATTTTACAATATTCCAAATTTGCCCTTAATTTATC
AATTTTCCTGC
Found at i:13894668 original size:19 final size:19
Alignment explanation
Indices: 13894644--13894683 Score: 80
Period size: 19 Copynumber: 2.1 Consensus size: 19
13894634 TTTTGTTTAT
13894644 GATGTACTCAAATATGTAA
1 GATGTACTCAAATATGTAA
13894663 GATGTACTCAAATATGTAA
1 GATGTACTCAAATATGTAA
13894682 GA
1 GA
13894684 CGTTCTCTGA
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:0.42, C:0.10, G:0.17, T:0.30
Consensus pattern (19 bp):
GATGTACTCAAATATGTAA
Found at i:13901752 original size:16 final size:16
Alignment explanation
Indices: 13901731--13901761 Score: 62
Period size: 16 Copynumber: 1.9 Consensus size: 16
13901721 ACATTTATAT
13901731 GAGTATTATGAAATAC
1 GAGTATTATGAAATAC
13901747 GAGTATTATGAAATA
1 GAGTATTATGAAATA
13901762 AGGTATGTAT
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
16 15 1.00
ACGTcount: A:0.45, C:0.03, G:0.19, T:0.32
Consensus pattern (16 bp):
GAGTATTATGAAATAC
Found at i:13901772 original size:16 final size:16
Alignment explanation
Indices: 13901731--13901773 Score: 61
Period size: 16 Copynumber: 2.7 Consensus size: 16
13901721 ACATTTATAT
*
13901731 GAGTATTATGAAATAC
1 GAGTATTATGAAATAA
13901747 GAGTATTATGAAATAA
1 GAGTATTATGAAATAA
13901763 G-GTATGTATGA
1 GAGTAT-TATGA
13901774 TCTACTCTGT
Statistics
Matches: 25, Mismatches: 1, Indels: 2
0.89 0.04 0.07
Matches are distributed among these distances:
15 4 0.16
16 21 0.84
ACGTcount: A:0.42, C:0.02, G:0.23, T:0.33
Consensus pattern (16 bp):
GAGTATTATGAAATAA
Found at i:13909019 original size:20 final size:20
Alignment explanation
Indices: 13908984--13909021 Score: 58
Period size: 20 Copynumber: 1.9 Consensus size: 20
13908974 CTCACATGCC
**
13908984 AAAGTGAAAATTTGATTTTT
1 AAAGTGAAAAAGTGATTTTT
13909004 AAAGTGAAAAAGTGATTT
1 AAAGTGAAAAAGTGATTT
13909022 GGCGTGGTCA
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:0.45, C:0.00, G:0.18, T:0.37
Consensus pattern (20 bp):
AAAGTGAAAAAGTGATTTTT
Found at i:13909455 original size:43 final size:43
Alignment explanation
Indices: 13909408--13909550 Score: 148
Period size: 43 Copynumber: 3.3 Consensus size: 43
13909398 CGCCTTAACC
13909408 CCCTAAGCAGTAGGGTAACAGG-CTAAAATTACAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTC-AAAATTACAGATCTTATCT
* * * ** ** *
13909451 CCCTAAGCAGTAGTGG-AATAGATCAACGACGACTCACCTTAATC-
1 CCCTAAGCAGTAG-GGTAACAGGTCAA-AATTACAGATCTT-ATCT
*
13909495 CCCTAAGCAGTAGGGTAACAGGTCAAAATTGCAGATCTTATCT
1 CCCTAAGCAGTAGGGTAACAGGTCAAAATTACAGATCTTATCT
13909538 CCCTAAGCAGTAG
1 CCCTAAGCAGTAG
13909551 TGGAGCAGAT
Statistics
Matches: 77, Mismatches: 17, Indels: 12
0.73 0.16 0.11
Matches are distributed among these distances:
42 3 0.04
43 40 0.52
44 31 0.40
45 3 0.04
ACGTcount: A:0.34, C:0.24, G:0.20, T:0.23
Consensus pattern (43 bp):
CCCTAAGCAGTAGGGTAACAGGTCAAAATTACAGATCTTATCT
Found at i:13909546 original size:87 final size:84
Alignment explanation
Indices: 13909400--13909598 Score: 285
Period size: 87 Copynumber: 2.3 Consensus size: 84
13909390 AAATTCAGCG
13909400 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
* *
13909465 GGAATAGATC-AACGACGACTCA
66 GGAACAGATCGAA-GATG---CA
* *
13909487 CCTTAATCCCCTAAGCAGTAGGGTAACAGG-TCAAAATTGCAGATCTTATCTCCCTAAGCAGTAG
1 CCTTAACCCCCTAAGCAGTAGGGTAACAGGCT-AAAATTACAGATCTTATCTCCCTAAGCAGTAG
* *
13909551 TGGAGCAGATCGAAGATGCG
65 TGGAACAGATCGAAGATGCA
13909571 CCTTAACCCCCTAAGCAGTAGGGTAACA
1 CCTTAACCCCCTAAGCAGTAGGGTAACA
13909599 AGTTAAAGTA
Statistics
Matches: 103, Mismatches: 7, Indels: 7
0.88 0.06 0.06
Matches are distributed among these distances:
84 28 0.27
86 1 0.01
87 72 0.70
88 2 0.02
ACGTcount: A:0.33, C:0.25, G:0.21, T:0.22
Consensus pattern (84 bp):
CCTTAACCCCCTAAGCAGTAGGGTAACAGGCTAAAATTACAGATCTTATCTCCCTAAGCAGTAGT
GGAACAGATCGAAGATGCA
Found at i:13915396 original size:20 final size:19
Alignment explanation
Indices: 13915352--13915397 Score: 56
Period size: 20 Copynumber: 2.4 Consensus size: 19
13915342 GAATCTAAAA
*
13915352 TGCATGCTTGTTTAAAAGT
1 TGCATACTTGTTTAAAAGT
* *
13915371 TACATACTTAGTTTAAAATT
1 TGCATACTT-GTTTAAAAGT
13915391 TGCATAC
1 TGCATAC
13915398 AAAGTAGTTG
Statistics
Matches: 22, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
19 7 0.32
20 15 0.68
ACGTcount: A:0.33, C:0.13, G:0.13, T:0.41
Consensus pattern (19 bp):
TGCATACTTGTTTAAAAGT
Found at i:13916297 original size:32 final size:32
Alignment explanation
Indices: 13916254--13916322 Score: 102
Period size: 32 Copynumber: 2.2 Consensus size: 32
13916244 ATTTTAAAAA
* *
13916254 TTATATTTAATACAATAAAATATTTATTATTT
1 TTATATTTAATACAATAAAACATTTATTATAT
* *
13916286 TTATTTTTAATATAATAAAACATTTATTATAT
1 TTATATTTAATACAATAAAACATTTATTATAT
13916318 TTATA
1 TTATA
13916323 GTAATACTTT
Statistics
Matches: 32, Mismatches: 5, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
32 32 1.00
ACGTcount: A:0.43, C:0.03, G:0.00, T:0.54
Consensus pattern (32 bp):
TTATATTTAATACAATAAAACATTTATTATAT
Found at i:13918896 original size:3 final size:3
Alignment explanation
Indices: 13918888--13918916 Score: 58
Period size: 3 Copynumber: 9.7 Consensus size: 3
13918878 AAGGAACAAA
13918888 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
1 GAT GAT GAT GAT GAT GAT GAT GAT GAT GA
13918917 AAAAATATTG
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 26 1.00
ACGTcount: A:0.34, C:0.00, G:0.34, T:0.31
Consensus pattern (3 bp):
GAT
Found at i:13920689 original size:23 final size:23
Alignment explanation
Indices: 13920662--13920708 Score: 69
Period size: 23 Copynumber: 2.0 Consensus size: 23
13920652 AAACAAATAA
13920662 TATATTTATATAAT-TAAAATATT
1 TATATTT-TATAATATAAAATATT
*
13920685 TATATTTTATACTATAAAATATT
1 TATATTTTATAATATAAAATATT
13920708 T
1 T
13920709 TTTAAAAGAA
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
22 5 0.23
23 17 0.77
ACGTcount: A:0.45, C:0.02, G:0.00, T:0.53
Consensus pattern (23 bp):
TATATTTTATAATATAAAATATT
Found at i:13920848 original size:17 final size:17
Alignment explanation
Indices: 13920806--13920848 Score: 54
Period size: 16 Copynumber: 2.6 Consensus size: 17
13920796 CAGTAAGAAA
*
13920806 TTATTAAAAT-AAAAAT
1 TTATTAAATTAAAAAAT
*
13920822 TT-TTATATTAAAAAAT
1 TTATTAAATTAAAAAAT
13920838 TTATTAAATTA
1 TTATTAAATTA
13920849 TTAAATTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 3
0.79 0.11 0.11
Matches are distributed among these distances:
15 5 0.23
16 10 0.45
17 7 0.32
ACGTcount: A:0.53, C:0.00, G:0.00, T:0.47
Consensus pattern (17 bp):
TTATTAAATTAAAAAAT
Found at i:13920864 original size:21 final size:21
Alignment explanation
Indices: 13920838--13920878 Score: 55
Period size: 21 Copynumber: 2.0 Consensus size: 21
13920828 ATTAAAAAAT
13920838 TTATTAAATTATTAAATTATA
1 TTATTAAATTATTAAATTATA
** *
13920859 TTATTACTTTATTATATTAT
1 TTATTAAATTATTAAATTAT
13920879 TAAATATACA
Statistics
Matches: 17, Mismatches: 3, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
21 17 1.00
ACGTcount: A:0.39, C:0.02, G:0.00, T:0.59
Consensus pattern (21 bp):
TTATTAAATTATTAAATTATA
Found at i:13924155 original size:31 final size:31
Alignment explanation
Indices: 13924120--13924178 Score: 100
Period size: 31 Copynumber: 1.9 Consensus size: 31
13924110 ATGCAATGAC
*
13924120 AAATAAAAATTTTTGAATAGTTCAATAATTT
1 AAATAAAAATTTTTGAATAATTCAATAATTT
*
13924151 AAATAAAATTTTTTGAATAATTCAATAA
1 AAATAAAAATTTTTGAATAATTCAATAA
13924179 AGAAATTATA
Statistics
Matches: 26, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
31 26 1.00
ACGTcount: A:0.51, C:0.03, G:0.05, T:0.41
Consensus pattern (31 bp):
AAATAAAAATTTTTGAATAATTCAATAATTT
Found at i:13924192 original size:31 final size:31
Alignment explanation
Indices: 13924120--13924195 Score: 91
Period size: 31 Copynumber: 2.5 Consensus size: 31
13924110 ATGCAATGAC
* * **
13924120 AAATAAAAATTTTTGAATAGTTCAATAATTT
1 AAATAAAATTTTTTGAATAATTCAATAATAG
13924151 AAATAAAATTTTTTGAATAATTCAATAA-AG
1 AAATAAAATTTTTTGAATAATTCAATAATAG
*
13924181 AAATTATAATTTTTT
1 AAA-TAAAATTTTTT
13924196 AATTATGTGA
Statistics
Matches: 39, Mismatches: 5, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 3 0.08
31 36 0.92
ACGTcount: A:0.49, C:0.03, G:0.05, T:0.43
Consensus pattern (31 bp):
AAATAAAATTTTTTGAATAATTCAATAATAG
Found at i:13926629 original size:15 final size:15
Alignment explanation
Indices: 13926611--13926644 Score: 52
Period size: 15 Copynumber: 2.3 Consensus size: 15
13926601 CATATAGGTG
13926611 GTTCGCAT-TCAATCA
1 GTTCGCATATC-ATCA
13926626 GTTCGCATATCATCA
1 GTTCGCATATCATCA
13926641 GTTC
1 GTTC
13926645 AATTCAGTGA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
15 16 0.89
16 2 0.11
ACGTcount: A:0.24, C:0.26, G:0.15, T:0.35
Consensus pattern (15 bp):
GTTCGCATATCATCA
Found at i:13936995 original size:6 final size:6
Alignment explanation
Indices: 13936984--13937009 Score: 52
Period size: 6 Copynumber: 4.3 Consensus size: 6
13936974 TTAAAAGTAG
13936984 AAAAGA AAAAGA AAAAGA AAAAGA AA
1 AAAAGA AAAAGA AAAAGA AAAAGA AA
13937010 GACTTAACAG
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 20 1.00
ACGTcount: A:0.85, C:0.00, G:0.15, T:0.00
Consensus pattern (6 bp):
AAAAGA
Found at i:13946933 original size:19 final size:20
Alignment explanation
Indices: 13946909--13946951 Score: 70
Period size: 19 Copynumber: 2.2 Consensus size: 20
13946899 GAGCACTCTC
*
13946909 TTTGCTGCTTGAAGGTGTT-
1 TTTGCTACTTGAAGGTGTTG
13946928 TTTGCTACTTGAAGGTGTTG
1 TTTGCTACTTGAAGGTGTTG
13946948 TTTG
1 TTTG
13946952 TTGCAGCAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 1
0.92 0.04 0.04
Matches are distributed among these distances:
19 18 0.82
20 4 0.18
ACGTcount: A:0.12, C:0.09, G:0.30, T:0.49
Consensus pattern (20 bp):
TTTGCTACTTGAAGGTGTTG
Found at i:13951102 original size:46 final size:46
Alignment explanation
Indices: 13951046--13951192 Score: 172
Period size: 46 Copynumber: 3.2 Consensus size: 46
13951036 TTTATTGCTG
* * *
13951046 ATCCAAGCATGCTTTTCTTTAACGCTTCAGCAACTCATTTAATGTC
1 ATCCATGCATGCTTTTCTTTAATGCTTCAGCAACTCATTTAATGCC
13951092 ATCCATGCATG-TTTTGCTTTAATGCTTCAGCAGA-TCATTTAATGCC
1 ATCCATGCATGCTTTT-CTTTAATGCTTCAGCA-ACTCATTTAATGCC
* * * * * *
13951138 GTCCATGCATGCTTTGCCTTAATGCTTCAGCAGCTCCTTTAATGCT
1 ATCCATGCATGCTTTTCTTTAATGCTTCAGCAACTCATTTAATGCC
13951184 ATCCCATGC
1 AT-CCATGC
13951193 TTGCAGCTGC
Statistics
Matches: 86, Mismatches: 10, Indels: 9
0.82 0.10 0.09
Matches are distributed among these distances:
45 4 0.05
46 72 0.84
47 10 0.12
ACGTcount: A:0.22, C:0.27, G:0.14, T:0.37
Consensus pattern (46 bp):
ATCCATGCATGCTTTTCTTTAATGCTTCAGCAACTCATTTAATGCC
Found at i:13951341 original size:28 final size:27
Alignment explanation
Indices: 13951308--13951365 Score: 82
Period size: 28 Copynumber: 2.1 Consensus size: 27
13951298 ATTAATTCGG
*
13951308 TTAAAACATATTAAAGAT-ATGTAATAGA
1 TTAAAACACATTAAA-ATCATGTAATA-A
13951336 TTAAAACACATTAAAATCATGTAATAA
1 TTAAAACACATTAAAATCATGTAATAA
13951363 TTA
1 TTA
13951366 TTCAAGCTGA
Statistics
Matches: 28, Mismatches: 1, Indels: 3
0.88 0.03 0.09
Matches are distributed among these distances:
27 6 0.21
28 22 0.79
ACGTcount: A:0.53, C:0.07, G:0.07, T:0.33
Consensus pattern (27 bp):
TTAAAACACATTAAAATCATGTAATAA
Found at i:13964408 original size:11 final size:12
Alignment explanation
Indices: 13964391--13964422 Score: 50
Period size: 11 Copynumber: 2.8 Consensus size: 12
13964381 GTCCATTATG
13964391 CTTTCTTTTTCT
1 CTTTCTTTTTCT
13964403 -TTTC-TTTTCT
1 CTTTCTTTTTCT
13964413 CTTTCTTTTT
1 CTTTCTTTTT
13964423 TTCGCTTATT
Statistics
Matches: 18, Mismatches: 0, Indels: 4
0.82 0.00 0.18
Matches are distributed among these distances:
10 6 0.33
11 8 0.44
12 4 0.22
ACGTcount: A:0.00, C:0.22, G:0.00, T:0.78
Consensus pattern (12 bp):
CTTTCTTTTTCT
Found at i:13964959 original size:30 final size:32
Alignment explanation
Indices: 13964920--13964982 Score: 85
Period size: 30 Copynumber: 2.0 Consensus size: 32
13964910 TGAAAATTTT
* * *
13964920 AGAATCAGAGAAGATGAAA-GG-AAAGTAGGA
1 AGAACCAGAGAAAATAAAAGGGAAAAGTAGGA
13964950 AGAACCAGAGAAAATAAAAGGGAAAAGTAGGA
1 AGAACCAGAGAAAATAAAAGGGAAAAGTAGGA
13964982 A
1 A
13964983 CTGCTGCAAT
Statistics
Matches: 28, Mismatches: 3, Indels: 2
0.85 0.09 0.06
Matches are distributed among these distances:
30 16 0.57
31 2 0.07
32 10 0.36
ACGTcount: A:0.57, C:0.05, G:0.30, T:0.08
Consensus pattern (32 bp):
AGAACCAGAGAAAATAAAAGGGAAAAGTAGGA
Found at i:13965786 original size:50 final size:51
Alignment explanation
Indices: 13965723--13965825 Score: 199
Period size: 50 Copynumber: 2.0 Consensus size: 51
13965713 TCTTATATCC
13965723 TTTACCAAAAACAGATACATTTCTCAGAAGACTACCCATATGAAATTT-CT
1 TTTACCAAAAACAGATACATTTCTCAGAAGACTACCCATATGAAATTTACT
13965773 TTTACCAAAAACAGATACATTTCTCAGAAGACTACCCATATGAAATTTACT
1 TTTACCAAAAACAGATACATTTCTCAGAAGACTACCCATATGAAATTTACT
13965824 TT
1 TT
13965826 CGGCAAATCT
Statistics
Matches: 52, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
50 48 0.92
51 4 0.08
ACGTcount: A:0.40, C:0.21, G:0.08, T:0.31
Consensus pattern (51 bp):
TTTACCAAAAACAGATACATTTCTCAGAAGACTACCCATATGAAATTTACT
Found at i:13966597 original size:38 final size:37
Alignment explanation
Indices: 13966509--13966606 Score: 97
Period size: 38 Copynumber: 2.6 Consensus size: 37
13966499 TACATAGCAT
* * *
13966509 GCCACATTGGCTTCACCGAATATGCCATTATAGAATAT
1 GCCACA-TGGCTTCACCAAATACGCCATTATAGAATAC
* * * *
13966547 ACCATATGGGCTTCACCAAATACGGCATTATAGGATAC
1 GCCACAT-GGCTTCACCAAATACGCCATTATAGAATAC
*
13966585 GCCACACTGGCTTCACTAAATA
1 GCCACA-TGGCTTCACCAAATA
13966607 TATCTGTAAT
Statistics
Matches: 48, Mismatches: 10, Indels: 4
0.77 0.16 0.06
Matches are distributed among these distances:
37 1 0.02
38 46 0.96
39 1 0.02
ACGTcount: A:0.33, C:0.26, G:0.16, T:0.26
Consensus pattern (37 bp):
GCCACATGGCTTCACCAAATACGCCATTATAGAATAC
Found at i:13967956 original size:50 final size:50
Alignment explanation
Indices: 13967837--13968270 Score: 399
Period size: 50 Copynumber: 8.6 Consensus size: 50
13967827 GTTGTGAGAA
* * *
13967837 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAG-TT-TTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTG--T-A-CCAGATTGTTAGGT
*
13967889 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
** * * * * * * *
13967939 TGCATGTGTAGTGCTAAGTGCAGGCTATTATGCGTACCCGATAGTTTAGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTG-TTAGGT
* * * *
13967990 CACATGTGTAGTACTAAGTGCGGGCTACTATGTGTATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * ** *
13968040 TACATGTGTAGTACTAAGTGCAGGCTACTACATATACTGGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * * *
13968090 CGCATGTGTAGTACTAAGTGTAGGCTACTACGCGTACTC-G-TTAACTTTGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATT--GTTAGGT
* * * * * * *
13968141 CACGTGTGTAGTACTAAATGCAGACTACTACGTGTATCAGATGGATAAGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * *
13968191 CACGTGTGTAGTACTAAGTGCAGGCTACTACATGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* *
13968241 CGCATGTGTAGTACTAAATGCAGGCTACTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTA
13968271 TGGATACCAG
Statistics
Matches: 307, Mismatches: 67, Indels: 18
0.78 0.17 0.05
Matches are distributed among these distances:
48 3 0.01
49 5 0.02
50 193 0.63
51 74 0.24
52 32 0.10
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:13968016 original size:101 final size:101
Alignment explanation
Indices: 13967837--13968270 Score: 399
Period size: 101 Copynumber: 4.3 Consensus size: 101
13967827 GTTGTGAGAA
** * *** * *
13967837 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATAG-TTTAGGTCACATGTGTAGTA
13967902 CTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
65 CTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
** * * * * * * *
13967939 TGCATGTGTAGTGCTAAGTGCAGGCTATTATGCGTACCCGATAGTTTAGATCACATGTGTAGTAC
1 CACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATAGTTTAGGTCACATGTGTAGTAC
* * * *
13968004 TAAGTGCGGGCTACTATGTGTATCAGATGGTTAGGT
66 TAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * * ** * * *
13968040 TACATGTGTAGTACTAAGTGCAGGCTACTACATATACTGGATTG-ATAGGTCGCATGTGTAGTAC
1 CACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATAGTTTAGGTCACATGTGTAGTAC
* * * * *
13968104 TAAGTGTAGGCTACTACGCGTACTC-G-TTAACTTTGAT
66 TAAGTGCAGGCTACTACGTGTAC-CAGATT--GTTAGGT
* * * ** * *
13968141 CACGTGTGTAGTACTAAATGCAGACTACTACGTGTATCAGAT-GGATAAGTCACGTGTGTAGTAC
1 CACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATAGTTTAGGTCACATGTGTAGTAC
* *
13968205 TAAGTGCAGGCTACTACATGTACCAGATTGATAGGT
66 TAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
*
13968241 CGCATGTGTAGTACTAAATGCAGGCTACTA
1 CACATGTGTAGTACTAAATGCAGGCTACTA
13968271 TGGATACCAG
Statistics
Matches: 265, Mismatches: 61, Indels: 14
0.78 0.18 0.04
Matches are distributed among these distances:
99 1 0.00
100 68 0.26
101 161 0.61
102 35 0.13
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (101 bp):
CACATGTGTAGTACTAAATGCAGGCTACTACGTGTACCAGATAGTTTAGGTCACATGTGTAGTAC
TAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:13968115 original size:151 final size:151
Alignment explanation
Indices: 13967837--13968272 Score: 586
Period size: 151 Copynumber: 2.9 Consensus size: 151
13967827 GTTGTGAGAA
* * * * *
13967837 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACAGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGA-TG-GTTAGGTCACGTGTGTAGTA
* * * * *
13967902 CTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGTTGCATGTGTAGTGCTAAGTGCAGGCTAT
64 CTAAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTAC
*
13967967 TATGCGTACCCGAT-AGTTTAGAT
129 TATGCGTACCCGATAACTTT-GAT
* * *
13967990 CACATGTGTAGTACTAAGTGCGGGCTACTATGTGTATCAGATGGTTAGGTTACATGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
* ** *
13968055 AAGTGCAGGCTACTACATATACTGGATTGATAGGTCGCATGTGTAGTACTAAGTGTAGGCTACTA
66 AAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
* * *
13968120 CGCGTACTCGTTAACTTTGAT
131 TGCGTACCCGATAACTTTGAT
* * * * * *
13968141 CACGTGTGTAGTACTAAATGCAGACTACTACGTGTATCAGATGGATAAGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
*
13968206 AAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTACTAAATGCAGGCTACTA
66 AAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
13968271 TG
131 TG
13968273 GATACCAGAG
Statistics
Matches: 246, Mismatches: 36, Indels: 4
0.86 0.13 0.01
Matches are distributed among these distances:
151 204 0.83
152 5 0.02
153 37 0.15
ACGTcount: A:0.26, C:0.16, G:0.26, T:0.31
Consensus pattern (151 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTATGTGTATCAGATGGTTAGGTCACGTGTGTAGTACT
AAGTGCAGGCTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTACTA
TGCGTACCCGATAACTTTGAT
Found at i:13969163 original size:180 final size:180
Alignment explanation
Indices: 13968861--13969225 Score: 563
Period size: 180 Copynumber: 2.0 Consensus size: 180
13968851 CATCTGAGAT
* *
13968861 CCGTACCATGAGATAAATAATTTTTAGTGAAGAAAGATCGGAACTGTCAGACAGTGAAACATGGG
1 CCGTACCATGAGATAAATAATTTTTACTGAAGAAAGATCGGAACTGTCAGACAGTGAAACAGGGG
*
13968926 TATATTTAATGAATAAATTGTACTAATTGGATAAACCAAAAATTCTAAAAATTTTATGGTAAGAA
66 TATATTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTAAAAATTTTATGGTAAGAA
*
13968991 TATATGTGAGTCTAGTTTTTGGGAAAATTAACAGTTCTTAATTTGGAGTC
131 TATATGTGAGTCTAGTTTTTGGGAAAATTAACAGATCTTAATTTGGAGTC
* * * * * * *
13969041 CCGTACCATGAGATAAATAATTTTTACTGAAGAGAGGTCGGAATTAT-TGAATAGTGAAATAGGG
1 CCGTACCATGAGATAAATAATTTTTACTGAAGAAAGATCGGAACTGTCAG-ACAGTGAAACAGGG
*
13969105 GTA-ACTTTAATGAATAAACTGTACTAATTGGCTAAACCAAAAATTCTAAAAATTTTATGGTAAG
65 GTATA-TTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTAAAAATTTTATGGTAAG
* * *
13969169 AATATATGTGAGTTTGGTTTTTGGGAAAATTAACAGATCTTAATTTGGAGTT
129 AATATATGTGAGTCTAGTTTTTGGGAAAATTAACAGATCTTAATTTGGAGTC
13969221 CCGTA
1 CCGTA
13969226 GCTCCAGCTA
Statistics
Matches: 168, Mismatches: 15, Indels: 4
0.90 0.08 0.02
Matches are distributed among these distances:
179 2 0.01
180 166 0.99
ACGTcount: A:0.38, C:0.09, G:0.19, T:0.33
Consensus pattern (180 bp):
CCGTACCATGAGATAAATAATTTTTACTGAAGAAAGATCGGAACTGTCAGACAGTGAAACAGGGG
TATATTTAATGAATAAACTGTACTAATTGGATAAACCAAAAATTCTAAAAATTTTATGGTAAGAA
TATATGTGAGTCTAGTTTTTGGGAAAATTAACAGATCTTAATTTGGAGTC
Found at i:13969876 original size:26 final size:26
Alignment explanation
Indices: 13969844--13969895 Score: 104
Period size: 26 Copynumber: 2.0 Consensus size: 26
13969834 CTCCACACGG
13969844 GCTTCACCGAATACTCTGTTACAGAA
1 GCTTCACCGAATACTCTGTTACAGAA
13969870 GCTTCACCGAATACTCTGTTACAGAA
1 GCTTCACCGAATACTCTGTTACAGAA
13969896 TACTCCACAC
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
26 26 1.00
ACGTcount: A:0.31, C:0.27, G:0.15, T:0.27
Consensus pattern (26 bp):
GCTTCACCGAATACTCTGTTACAGAA
Found at i:13971492 original size:25 final size:26
Alignment explanation
Indices: 13971431--13971492 Score: 81
Period size: 26 Copynumber: 2.4 Consensus size: 26
13971421 ATTTTATTGG
** *
13971431 GGGTAAAATCATCAAAATTTTACTAA
1 GGGTAAAATTGTCAAAATTTGACTAA
*
13971457 GGGTAAAATTGTCAAAATTTGATTAA
1 GGGTAAAATTGTCAAAATTTGACTAA
13971483 -GGTAAAATTG
1 GGGTAAAATTG
13971493 GGTGAGAAAA
Statistics
Matches: 32, Mismatches: 4, Indels: 1
0.86 0.11 0.03
Matches are distributed among these distances:
25 10 0.31
26 22 0.69
ACGTcount: A:0.44, C:0.06, G:0.18, T:0.32
Consensus pattern (26 bp):
GGGTAAAATTGTCAAAATTTGACTAA
Found at i:13986146 original size:15 final size:16
Alignment explanation
Indices: 13986126--13986158 Score: 50
Period size: 16 Copynumber: 2.1 Consensus size: 16
13986116 ATAGGACTAT
13986126 AATAAA-ATATTAAAA
1 AATAAATATATTAAAA
*
13986141 AATAAATATTTTAAAA
1 AATAAATATATTAAAA
13986157 AA
1 AA
13986159 AGATACACAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
15 6 0.38
16 10 0.62
ACGTcount: A:0.70, C:0.00, G:0.00, T:0.30
Consensus pattern (16 bp):
AATAAATATATTAAAA
Found at i:13986681 original size:8 final size:8
Alignment explanation
Indices: 13986668--13986693 Score: 52
Period size: 8 Copynumber: 3.2 Consensus size: 8
13986658 AAAAGAGCTA
13986668 AAAAAAAG
1 AAAAAAAG
13986676 AAAAAAAG
1 AAAAAAAG
13986684 AAAAAAAG
1 AAAAAAAG
13986692 AA
1 AA
13986694 TAACGTTTGC
Statistics
Matches: 18, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
8 18 1.00
ACGTcount: A:0.88, C:0.00, G:0.12, T:0.00
Consensus pattern (8 bp):
AAAAAAAG
Found at i:13992845 original size:47 final size:47
Alignment explanation
Indices: 13992770--13993038 Score: 239
Period size: 46 Copynumber: 5.7 Consensus size: 47
13992760 TGGGTAAGGT
* *
13992770 GCCGATGTCATGTCCCAAACACGGTCTTACACTAGCTCAT-ATCTC-AA
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCTCATCATCTCGAA
* * * *
13992817 GTCGATGCCATGTCCCAGACATGATCTTACATTAACT-ATCATCTCGTA
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTAGCTCATCATCTCGAA
** * * * *
13992865 GTTGATGCATGTCCCAGACATGTCTTACACTGGCTTAT-GTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAA
*
13992911 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTC-TCGTCTC-AA
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAA
* * * **
13992956 TGCCGATGCTAGGTCCCAGACATAGTCTTACACTGGCTC-TCATAAT-GTG
1 -GCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCTCATCAT-CTCGAA
*
13993005 GCCAATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
13993039 CAACAATAAC
Statistics
Matches: 184, Mismatches: 28, Indels: 21
0.79 0.12 0.09
Matches are distributed among these distances:
45 2 0.01
46 75 0.41
47 75 0.41
48 31 0.17
49 1 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (47 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCATCATCTCGAA
Found at i:13992918 original size:46 final size:46
Alignment explanation
Indices: 13992770--13993038 Score: 217
Period size: 47 Copynumber: 5.7 Consensus size: 46
13992760 TGGGTAAGGT
* * * *
13992770 GCCGATGTCATGTCCCAAACACGGTCTTACACTAGCTCATATCTC-AA
1 GCCGATG-CATGTCCCAGACA-TGTCTTACACTAGCTTATATCTCGAG
* * *
13992817 GTCGATGCCATGTCCCAGACATGATCTTACATTAAC-TATCATCTCGTA-
1 GCCGATG-CATGTCCCAGACATG-TCTTACACTAGCTTAT-ATCTCG-AG
** * *
13992865 GTTGATGCATGTCCCAGACATGTCTTACACTGGCTTATGTCTCGAG
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATATCTCGAG
** * *
13992911 GCCGATGCATGTCCCAGACATGTCTTACACTAGCTCT-CGTCTCAAT
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGCT-TATATCTCGAG
* * * *
13992957 GCCGATGCTAGGTCCCAGACATAGTCTTACACTGGCTCTCATA-AT-GTG
1 GCCGATGC-ATGTCCCAGACAT-GTCTTACACTAGCT-T-ATATCTCGAG
*
13993005 GCCAATGCATGTCCCAGACATGTCTTACACTAGC
1 GCCGATGCATGTCCCAGACATGTCTTACACTAGC
13993039 CAACAATAAC
Statistics
Matches: 182, Mismatches: 29, Indels: 23
0.78 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 75 0.41
47 76 0.42
48 28 0.15
49 2 0.01
ACGTcount: A:0.24, C:0.29, G:0.19, T:0.28
Consensus pattern (46 bp):
GCCGATGCATGTCCCAGACATGTCTTACACTAGCTTATATCTCGAG
Found at i:14008720 original size:6 final size:6
Alignment explanation
Indices: 14008705--14008761 Score: 55
Period size: 6 Copynumber: 9.5 Consensus size: 6
14008695 TTTGAGTCCC
* * *
14008705 TTTA-T TTTATT TTTATT TTTATT TTTA-T TTAAAT TTTATT TTCTCTT
1 TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TTTATT TT-TATT
14008752 ATTTATT TTT
1 -TTTATT TTT
14008762 GAAGACTTAT
Statistics
Matches: 43, Mismatches: 5, Indels: 7
0.78 0.09 0.13
Matches are distributed among these distances:
5 8 0.19
6 27 0.63
7 6 0.14
8 2 0.05
ACGTcount: A:0.19, C:0.04, G:0.00, T:0.77
Consensus pattern (6 bp):
TTTATT
Found at i:14012902 original size:15 final size:15
Alignment explanation
Indices: 14012882--14012911 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
14012872 CACAATACAG
14012882 GTCATCCGTCCTTCA
1 GTCATCCGTCCTTCA
14012897 GTCATCCGTCCTTCA
1 GTCATCCGTCCTTCA
14012912 ACCCTAGCAC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.13, C:0.40, G:0.13, T:0.33
Consensus pattern (15 bp):
GTCATCCGTCCTTCA
Found at i:14015527 original size:16 final size:15
Alignment explanation
Indices: 14015506--14015535 Score: 51
Period size: 16 Copynumber: 1.9 Consensus size: 15
14015496 TATTTTATAA
14015506 TTCCTTACTTATTTAG
1 TTCCTTACTT-TTTAG
14015522 TTCCTTACTTTTTA
1 TTCCTTACTTTTTA
14015536 CTTATTATTA
Statistics
Matches: 14, Mismatches: 0, Indels: 1
0.93 0.00 0.07
Matches are distributed among these distances:
15 4 0.29
16 10 0.71
ACGTcount: A:0.17, C:0.20, G:0.03, T:0.60
Consensus pattern (15 bp):
TTCCTTACTTTTTAG
Found at i:14019074 original size:30 final size:30
Alignment explanation
Indices: 14019037--14019110 Score: 139
Period size: 30 Copynumber: 2.5 Consensus size: 30
14019027 CAGGTGATCT
14019037 ACATGCCCGTGTGTGACACACGGGTAGACC
1 ACATGCCCGTGTGTGACACACGGGTAGACC
*
14019067 ACTTGCCCGTGTGTGACACACGGGTAGACC
1 ACATGCCCGTGTGTGACACACGGGTAGACC
14019097 ACATGCCCGTGTGT
1 ACATGCCCGTGTGT
14019111 CATGGCCGTG
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
30 42 1.00
ACGTcount: A:0.20, C:0.30, G:0.30, T:0.20
Consensus pattern (30 bp):
ACATGCCCGTGTGTGACACACGGGTAGACC
Found at i:14024140 original size:13 final size:13
Alignment explanation
Indices: 14024122--14024146 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
14024112 GGGAGGAGAC
14024122 ACGGCCATGTGGT
1 ACGGCCATGTGGT
14024135 ACGGCCATGTGG
1 ACGGCCATGTGG
14024147 AAACAGGGCA
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:0.16, C:0.24, G:0.40, T:0.20
Consensus pattern (13 bp):
ACGGCCATGTGGT
Found at i:14024679 original size:17 final size:17
Alignment explanation
Indices: 14024657--14024696 Score: 53
Period size: 17 Copynumber: 2.4 Consensus size: 17
14024647 TCTCTTCAAA
14024657 TATTTTACTTATTTCAT
1 TATTTTACTTATTTCAT
** *
14024674 TATTTTTTTTATTTGAT
1 TATTTTACTTATTTCAT
14024691 TATTTT
1 TATTTT
14024697 GAGTAAATAT
Statistics
Matches: 20, Mismatches: 3, Indels: 0
0.87 0.13 0.00
Matches are distributed among these distances:
17 20 1.00
ACGTcount: A:0.20, C:0.05, G:0.03, T:0.72
Consensus pattern (17 bp):
TATTTTACTTATTTCAT
Found at i:14034563 original size:29 final size:28
Alignment explanation
Indices: 14034529--14034584 Score: 78
Period size: 28 Copynumber: 2.0 Consensus size: 28
14034519 TACAGGGGTT
14034529 TTCACAT-AGCCAAACACACACCCGTGTCC
1 TTCACATCA-CCAAA-ACACACCCGTGTCC
*
14034558 TTCACATCACCACAACACACCCGTGTC
1 TTCACATCACCAAAACACACCCGTGTC
14034585 TGATCGCGAT
Statistics
Matches: 25, Mismatches: 1, Indels: 3
0.86 0.03 0.10
Matches are distributed among these distances:
28 13 0.52
29 11 0.44
30 1 0.04
ACGTcount: A:0.30, C:0.43, G:0.09, T:0.18
Consensus pattern (28 bp):
TTCACATCACCAAAACACACCCGTGTCC
Found at i:14036904 original size:47 final size:48
Alignment explanation
Indices: 14036831--14037013 Score: 207
Period size: 47 Copynumber: 3.9 Consensus size: 48
14036821 TGGGTAAAGT
* * *
14036831 GTCGATGCTATGTCCTAGACACGGTCTTACACTGGCTCAT-ATCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
*
14036878 GTCGATGCCATGTCCCAGACATGGTCTTACACTGACT-ATCATCTCATA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCA-A
* * * *
14036926 GCCGATG-CATGTCCCAGACAT-GTCTTACACTAGC-CCTCGTCTCAA
1 GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
* * *
14036971 TGTCGATACTAGGTCCCAGACATGGTCTTACACTGGCTC-TCAT
1 -GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCAT
14037014 AATGTGGCCG
Statistics
Matches: 114, Mismatches: 15, Indels: 13
0.80 0.11 0.09
Matches are distributed among these distances:
45 1 0.01
46 25 0.22
47 65 0.57
48 22 0.19
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (48 bp):
GTCGATGCCATGTCCCAGACATGGTCTTACACTGGCTCATCATCTCAA
Found at i:14036969 original size:46 final size:46
Alignment explanation
Indices: 14036833--14037054 Score: 182
Period size: 47 Copynumber: 4.7 Consensus size: 46
14036823 GGTAAAGTGT
* * * * *
14036833 CGATGCTATGTCCTAGACACGGTCTTACACTGGCTCAT-ATCTCAAGT
1 CGATGC-ATGTCCCAGACATGGTCTTACACTAGC-CCTCATCTCAAGC
**
14036880 CGATGCCATGTCCCAGACATGGTCTTACACT-GACTATCATCTCATAGC
1 CGATG-CATGTCCCAGACATGGTCTTACACTAG-CCCTCATCTCA-AGC
* *
14036928 CGATGCATGTCCCAGACAT-GTCTTACACTAGCCCTCGTCTCAATGT
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCCCTCATCTCAA-GC
* * * * * ***
14036974 CGATACTAGGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGC
1 CGATGC-ATGTCCCAGACATGGTCTTACACTAGCCCTCAT-CTCAAGC
*
14037022 CGATGCATGTTCCAGACAT-GTCTTACACTAGCC
1 CGATGCATGTCCCAGACATGGTCTTACACTAGCC
14037055 AATAATAACC
Statistics
Matches: 143, Mismatches: 23, Indels: 19
0.77 0.12 0.10
Matches are distributed among these distances:
45 1 0.01
46 39 0.27
47 72 0.50
48 30 0.21
49 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (46 bp):
CGATGCATGTCCCAGACATGGTCTTACACTAGCCCTCATCTCAAGC
Found at i:14037001 original size:94 final size:93
Alignment explanation
Indices: 14036872--14037054 Score: 260
Period size: 94 Copynumber: 2.0 Consensus size: 93
14036862 CTGGCTCATA
* * *
14036872 TCTCAAGTCGATGCCATGTCCCAGACATGGTCTTACACTGACTATCAT-CTCATAGCCGATGCAT
1 TCTCAAGTCGATACCAGGTCCCAGACATGGTCTTACACTGACTATCATAAT-ATAGCCGATGCAT
14036936 GTCCCAGACATGTCTTACACTAGCCCTCG
65 GTCCCAGACATGTCTTACACTAGCCCTCG
* * * * *
14036965 TCTCAATGTCGATACTAGGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATGCAT
1 TCTCAA-GTCGATACCAGGTCCCAGACATGGTCTTACACTGACTATCATAATATAGCCGATGCAT
*
14037030 GTTCCAGACATGTCTTACACTAGCC
65 GTCCCAGACATGTCTTACACTAGCC
14037055 AATAATAACC
Statistics
Matches: 79, Mismatches: 9, Indels: 3
0.87 0.10 0.03
Matches are distributed among these distances:
93 6 0.08
94 72 0.91
95 1 0.01
ACGTcount: A:0.23, C:0.30, G:0.19, T:0.28
Consensus pattern (93 bp):
TCTCAAGTCGATACCAGGTCCCAGACATGGTCTTACACTGACTATCATAATATAGCCGATGCATG
TCCCAGACATGTCTTACACTAGCCCTCG
Found at i:14043416 original size:43 final size:43
Alignment explanation
Indices: 14043368--14043512 Score: 136
Period size: 43 Copynumber: 3.4 Consensus size: 43
14043358 TGTTATTACA
* *
14043368 TGTAAGACCATGTCTGGGACATTGGCATTGTATTAAGATCACG
1 TGTAAGACCATGTCTGAGACATTGGCATTGTATTAAGATAACG
* **
14043411 TGTAAGACCATGTCTGAGACATTGGCATCG--TTAATCGATTTCG
1 TGTAAGACCATGTCTGAGACATTGGCATTGTATTAA--GATAACG
* * * *
14043454 TGTAAGACCCTGTCTAAGACAGTGGCATTGATATGT--GATAACA
1 TGTAAGACCATGTCTGAGACATTGGCATTG-TAT-TAAGATAACG
*
14043497 TGTAAGACCATATCTG
1 TGTAAGACCATGTCTG
14043513 GGATATGGCT
Statistics
Matches: 82, Mismatches: 14, Indels: 12
0.76 0.13 0.11
Matches are distributed among these distances:
41 4 0.05
43 76 0.93
46 1 0.01
47 1 0.01
ACGTcount: A:0.29, C:0.17, G:0.23, T:0.30
Consensus pattern (43 bp):
TGTAAGACCATGTCTGAGACATTGGCATTGTATTAAGATAACG
Found at i:14044082 original size:2 final size:2
Alignment explanation
Indices: 14044077--14044104 Score: 56
Period size: 2 Copynumber: 14.0 Consensus size: 2
14044067 GATTTATATA
14044077 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
1 TG TG TG TG TG TG TG TG TG TG TG TG TG TG
14044105 CGATGTATAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 26 1.00
ACGTcount: A:0.00, C:0.00, G:0.50, T:0.50
Consensus pattern (2 bp):
TG
Found at i:14048336 original size:14 final size:16
Alignment explanation
Indices: 14048302--14048338 Score: 51
Period size: 14 Copynumber: 2.4 Consensus size: 16
14048292 AAATAAAAGC
14048302 AAAACCATAAAACATT
1 AAAACCATAAAACATT
*
14048318 AAAACCA-ATAACA-T
1 AAAACCATAAAACATT
14048332 AAAACCA
1 AAAACCA
14048339 CGAAAAGAAA
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
14 8 0.40
15 5 0.25
16 7 0.35
ACGTcount: A:0.65, C:0.22, G:0.00, T:0.14
Consensus pattern (16 bp):
AAAACCATAAAACATT
Found at i:14049623 original size:30 final size:29
Alignment explanation
Indices: 14049589--14049654 Score: 114
Period size: 30 Copynumber: 2.2 Consensus size: 29
14049579 CTTAAATAAC
*
14049589 TTAACAAATGTTTTTAAAATAATAATAAAA
1 TTAACAAATGTCTTTAAAATAATAA-AAAA
14049619 TTAACAAATGTCTTTAAAATAATAAAAAA
1 TTAACAAATGTCTTTAAAATAATAAAAAA
14049648 TTAACAA
1 TTAACAA
14049655 TAAAATAAGT
Statistics
Matches: 35, Mismatches: 1, Indels: 1
0.95 0.03 0.03
Matches are distributed among these distances:
29 11 0.31
30 24 0.69
ACGTcount: A:0.58, C:0.06, G:0.03, T:0.33
Consensus pattern (29 bp):
TTAACAAATGTCTTTAAAATAATAAAAAA
Found at i:14058579 original size:79 final size:79
Alignment explanation
Indices: 14058456--14058603 Score: 251
Period size: 79 Copynumber: 1.9 Consensus size: 79
14058446 TTTCAAAAGG
*
14058456 AAAAAAGGAATAGATAAATGTATAGATTCTAATTAATTATTCCTATTTCCTACCACTTATTGTCA
1 AAAAAAGGAATAGATAAATGTATAGATTCTAATTAATTATTCCTATTTCCTACCACTTATAGTCA
14058521 CTCTTGCAAAAGAA
66 CTCTTGCAAAAGAA
* * * *
14058535 AAAAAAGGAATAGATAAATTTATAGATTCTCATTAATTATTCCTATTTCCTACCAGTTATAGTTA
1 AAAAAAGGAATAGATAAATGTATAGATTCTAATTAATTATTCCTATTTCCTACCACTTATAGTCA
14058600 CTCT
66 CTCT
14058604 CATTCTACTT
Statistics
Matches: 64, Mismatches: 5, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
79 64 1.00
ACGTcount: A:0.39, C:0.15, G:0.09, T:0.36
Consensus pattern (79 bp):
AAAAAAGGAATAGATAAATGTATAGATTCTAATTAATTATTCCTATTTCCTACCACTTATAGTCA
CTCTTGCAAAAGAA
Found at i:14060026 original size:14 final size:14
Alignment explanation
Indices: 14060002--14060040 Score: 53
Period size: 14 Copynumber: 2.9 Consensus size: 14
14059992 CAAAATGTAC
14060002 AATAT-AATTAAAT
1 AATATAAATTAAAT
14060015 AATATAAATTAAAT
1 AATATAAATTAAAT
* *
14060029 AAAATAATTTAA
1 AATATAAATTAA
14060041 TTAACTTTTT
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
13 5 0.22
14 18 0.78
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (14 bp):
AATATAAATTAAAT
Found at i:14061594 original size:21 final size:21
Alignment explanation
Indices: 14061569--14061614 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
14061559 TAATAAAATT
14061569 TATAAACGAAATAT-ATAA-TAA
1 TATAAAC--AATATGATAAGTAA
14061590 TATAAACAATATGATAAGTAA
1 TATAAACAATATGATAAGTAA
14061611 TATA
1 TATA
14061615 TAAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 14 0.61
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (21 bp):
TATAAACAATATGATAAGTAA
Found at i:14061621 original size:21 final size:18
Alignment explanation
Indices: 14061577--14061686 Score: 71
Period size: 20 Copynumber: 5.5 Consensus size: 18
14061567 TTTATAAACG
14061577 AAATATATAATAATATAA
1 AAATATATAATAATATAA
14061595 ACAATATGATAAGTAATATATA
1 A-AATAT-ATAA-TAATATA-A
14061617 AAATAATATATATAATA-AA
1 AAAT-ATATA-ATAATATAA
*
14061636 ATATAGGTA-ACATAATATATA
1 AAATA--TATA-ATAATATA-A
*
14061657 ATAATTTATAATAATATAA
1 A-AATATATAATAATATAA
14061676 TAAATAATATA
1 -AAAT-ATATA
14061687 CAAAGAAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 26
0.70 0.05 0.25
Matches are distributed among these distances:
18 2 0.03
19 20 0.27
20 23 0.32
21 21 0.29
22 7 0.10
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (18 bp):
AAATATATAATAATATAA
Found at i:14061623 original size:12 final size:12
Alignment explanation
Indices: 14061608--14061686 Score: 51
Period size: 12 Copynumber: 6.6 Consensus size: 12
14061598 ATATGATAAG
14061608 TAATATATAAAA
1 TAATATATAAAA
14061620 TAATATATATAATA
1 TAATATATA-AA-A
* *
14061634 AAATATAGGTAACA
1 TAATATA--TAAAA
14061648 TAATATAT--AA
1 TAATATATAAAA
*
14061658 TAAT-T-TATAA
1 TAATATATAAAA
14061668 TAATATA-ATAAA
1 TAATATATA-AAA
14061680 TAATATA
1 TAATATA
14061687 CAAAGAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
8 1 0.02
9 1 0.02
10 11 0.21
11 2 0.04
12 19 0.36
13 2 0.04
14 14 0.26
15 1 0.02
16 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (12 bp):
TAATATATAAAA
Found at i:14061627 original size:14 final size:14
Alignment explanation
Indices: 14061610--14061656 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
14061600 ATGATAAGTA
14061610 ATATATAAAATAAT
1 ATATATAAAATAAT
14061624 ATATATAATAA-AAT
1 ATATATAA-AATAAT
** *
14061638 ATAGGTAACATAAT
1 ATATATAAAATAAT
14061652 ATATA
1 ATATA
14061657 ATAATTTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 1 0.04
14 23 0.88
15 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (14 bp):
ATATATAAAATAAT
Found at i:14061638 original size:26 final size:28
Alignment explanation
Indices: 14061609--14061661 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
14061599 TATGATAAGT
14061609 AATATA-TAAAATAATATAT-ATAATAA
1 AATATAGTAAAATAATATATAATAATAA
*
14061635 AATATAGGTAACATAATATATAATAAT
1 AATATA-GTAAAATAATATATAATAAT
14061662 TTATAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
28 12 0.52
29 5 0.22
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (28 bp):
AATATAGTAAAATAATATATAATAATAA
Found at i:14061978 original size:12 final size:12
Alignment explanation
Indices: 14061958--14061991 Score: 50
Period size: 12 Copynumber: 2.8 Consensus size: 12
14061948 ATTTAGGGCC
*
14061958 AATTTAAAATAA
1 AATTAAAAATAA
*
14061970 AATTAAAAATGA
1 AATTAAAAATAA
14061982 AATTAAAAAT
1 AATTAAAAAT
14061992 TTCTGAAAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
12 20 1.00
ACGTcount: A:0.68, C:0.00, G:0.03, T:0.29
Consensus pattern (12 bp):
AATTAAAAATAA
Found at i:14064018 original size:220 final size:220
Alignment explanation
Indices: 14063450--14063997 Score: 812
Period size: 220 Copynumber: 2.5 Consensus size: 220
14063440 ATGTTGATAT
* * ** * * *
14063450 TTCGATCTGCTCTCCGTCGAACACAGAGACGCCAAATTTGCTTCTTCGATTTGTT-TCCTGACAA
1 TTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATATGTTTCTTCGATTTGTTCT-CTGACAA
* * * *
14063514 TACAGAGATGCCCAATCATCTTAGAT-TCGCTTTAGTGTAAACACGTGAAAGCCAAATCTGCTAC
65 TACAGAGATGCCAAATCATCTTAGATCT-GCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTAT
* * * *
14063578 GTCTTCGATATGCTCCTTGTAAACGTAAAAATTCCAAATCATCTTGGATCTGCTTCGATGCAAAA
129 GTCTTCGATATGCTCATTGTAAACGCAAAAATGCCAAATCATCTTGGATCTACTTCGATGCAAAA
14063643 ACATCCGAAGGTTAAATCTACTATGTC
194 ACATCCGAAGGTTAAATCTACTATGTC
*
14063670 TTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATATGTTTCTTCAATTTGTTCTCTGACAAT
1 TTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATATGTTTCTTCGATTTGTTCTCTGACAAT
14063735 ACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGT
66 ACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGT
* ** **
14063800 CTTCGATCTGCTCATTGTAAACGCAAGGATGCCAAATCATCTTGGATCTACTTCGATGTGAAAAC
131 CTTCGATATGCTCATTGTAAACGCAAAAATGCCAAATCATCTTGGATCTACTTCGATGCAAAAAC
* * *
14063865 ATCTGAAGGTTAGATCTGCTATGTC
196 ATCCGAAGGTTAAATCTACTATGTC
* *
14063890 TTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATCTGTTTTTTCGATTTGTTCTCTGACAAT
1 TTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATATGTTTCTTCGATTTGTTCTCTGACAAT
* *
14063955 ACAGAGATACCAAATCATCATAGATCTGCTTCAGCGTAAACAC
66 ACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACAC
14063998 CCGAAGGTCA
Statistics
Matches: 297, Mismatches: 29, Indels: 4
0.90 0.09 0.01
Matches are distributed among these distances:
220 295 0.99
221 2 0.01
ACGTcount: A:0.29, C:0.23, G:0.17, T:0.31
Consensus pattern (220 bp):
TTCGATCTACTCTCCGTCGAATATGGAGATGCCAAATATGTTTCTTCGATTTGTTCTCTGACAAT
ACAGAGATGCCAAATCATCTTAGATCTGCTTCAGCGTAAACACGTGAAAGCCAAATCTGCTATGT
CTTCGATATGCTCATTGTAAACGCAAAAATGCCAAATCATCTTGGATCTACTTCGATGCAAAAAC
ATCCGAAGGTTAAATCTACTATGTC
Found at i:14075841 original size:76 final size:77
Alignment explanation
Indices: 14075705--14075857 Score: 263
Period size: 76 Copynumber: 2.0 Consensus size: 77
14075695 AATATAAAAG
14075705 TTTTTTAAAGTGATGATGCATTTAACATATTACAAAGGATTAATAAATTAACTTACATAATACAT
1 TTTTTTAAAGTGATGATGCATTTAACA-ATTACAAAGGATTAATAAATTAACTTACATAATACAT
14075770 TCTTAAACCTTCA
65 TCTTAAACCTTCA
* *
14075783 TTTTTTAAAGTGATGATGCATTTAAC-ATTATAAAGGATTAATAAATTAACTTACATAATACCTT
1 TTTTTTAAAGTGATGATGCATTTAACAATTACAAAGGATTAATAAATTAACTTACATAATACATT
*
14075847 CTTTAACCTTC
66 CTTAAACCTTC
14075858 CCACATCCAG
Statistics
Matches: 72, Mismatches: 3, Indels: 2
0.94 0.04 0.03
Matches are distributed among these distances:
76 46 0.64
78 26 0.36
ACGTcount: A:0.39, C:0.13, G:0.08, T:0.40
Consensus pattern (77 bp):
TTTTTTAAAGTGATGATGCATTTAACAATTACAAAGGATTAATAAATTAACTTACATAATACATT
CTTAAACCTTCA
Found at i:14076794 original size:21 final size:21
Alignment explanation
Indices: 14076769--14076814 Score: 60
Period size: 21 Copynumber: 2.2 Consensus size: 21
14076759 TAATAAAATT
14076769 TATAAACGAAATAT-ATAA-TAA
1 TATAAAC--AATATGATAAGTAA
14076790 TATAAACAATATGATAAGTAA
1 TATAAACAATATGATAAGTAA
14076811 TATA
1 TATA
14076815 TAAAATAATA
Statistics
Matches: 23, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
19 5 0.22
20 4 0.17
21 14 0.61
ACGTcount: A:0.59, C:0.04, G:0.07, T:0.30
Consensus pattern (21 bp):
TATAAACAATATGATAAGTAA
Found at i:14076821 original size:21 final size:18
Alignment explanation
Indices: 14076777--14076886 Score: 71
Period size: 20 Copynumber: 5.5 Consensus size: 18
14076767 TTTATAAACG
14076777 AAATATATAATAATATAA
1 AAATATATAATAATATAA
14076795 ACAATATGATAAGTAATATATA
1 A-AATAT-ATAA-TAATATA-A
14076817 AAATAATATATATAATA-AA
1 AAAT-ATATA-ATAATATAA
*
14076836 ATATAGGTA-ACATAATATATA
1 AAATA--TATA-ATAATATA-A
*
14076857 ATAATTTATAATAATATAA
1 A-AATATATAATAATATAA
14076876 TAAATAATATA
1 -AAAT-ATATA
14076887 CAAAGAAAAA
Statistics
Matches: 73, Mismatches: 5, Indels: 26
0.70 0.05 0.25
Matches are distributed among these distances:
18 2 0.03
19 20 0.27
20 23 0.32
21 21 0.29
22 7 0.10
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.35
Consensus pattern (18 bp):
AAATATATAATAATATAA
Found at i:14076823 original size:12 final size:12
Alignment explanation
Indices: 14076808--14076886 Score: 51
Period size: 12 Copynumber: 6.6 Consensus size: 12
14076798 ATATGATAAG
14076808 TAATATATAAAA
1 TAATATATAAAA
14076820 TAATATATATAATA
1 TAATATATA-AA-A
* *
14076834 AAATATAGGTAACA
1 TAATATA--TAAAA
14076848 TAATATAT--AA
1 TAATATATAAAA
*
14076858 TAAT-T-TATAA
1 TAATATATAAAA
14076868 TAATATA-ATAAA
1 TAATATATA-AAA
14076880 TAATATA
1 TAATATA
14076887 CAAAGAAAAA
Statistics
Matches: 53, Mismatches: 5, Indels: 18
0.70 0.07 0.24
Matches are distributed among these distances:
8 1 0.02
9 1 0.02
10 11 0.21
11 2 0.04
12 19 0.36
13 2 0.04
14 14 0.26
15 1 0.02
16 2 0.04
ACGTcount: A:0.59, C:0.01, G:0.03, T:0.37
Consensus pattern (12 bp):
TAATATATAAAA
Found at i:14076827 original size:14 final size:14
Alignment explanation
Indices: 14076810--14076856 Score: 51
Period size: 14 Copynumber: 3.4 Consensus size: 14
14076800 ATGATAAGTA
14076810 ATATATAAAATAAT
1 ATATATAAAATAAT
14076824 ATATATAATAA-AAT
1 ATATATAA-AATAAT
** *
14076838 ATAGGTAACATAAT
1 ATATATAAAATAAT
14076852 ATATA
1 ATATA
14076857 ATAATTTATA
Statistics
Matches: 26, Mismatches: 5, Indels: 4
0.74 0.14 0.11
Matches are distributed among these distances:
13 1 0.04
14 23 0.88
15 2 0.08
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (14 bp):
ATATATAAAATAAT
Found at i:14076838 original size:26 final size:28
Alignment explanation
Indices: 14076809--14076861 Score: 74
Period size: 28 Copynumber: 1.9 Consensus size: 28
14076799 TATGATAAGT
14076809 AATATA-TAAAATAATATAT-ATAATAA
1 AATATAGTAAAATAATATATAATAATAA
*
14076835 AATATAGGTAACATAATATATAATAAT
1 AATATA-GTAAAATAATATATAATAAT
14076862 TTATAATAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 3
0.85 0.04 0.11
Matches are distributed among these distances:
26 6 0.26
28 12 0.52
29 5 0.22
ACGTcount: A:0.60, C:0.02, G:0.04, T:0.34
Consensus pattern (28 bp):
AATATAGTAAAATAATATATAATAATAA
Found at i:14088131 original size:3 final size:3
Alignment explanation
Indices: 14088123--14088147 Score: 50
Period size: 3 Copynumber: 8.3 Consensus size: 3
14088113 TGTTTATGAA
14088123 ATT ATT ATT ATT ATT ATT ATT ATT A
1 ATT ATT ATT ATT ATT ATT ATT ATT A
14088148 GTAATTAAAT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 22 1.00
ACGTcount: A:0.36, C:0.00, G:0.00, T:0.64
Consensus pattern (3 bp):
ATT
Found at i:14090495 original size:59 final size:60
Alignment explanation
Indices: 14090373--14090508 Score: 163
Period size: 59 Copynumber: 2.3 Consensus size: 60
14090363 AACTATGTTA
* *
14090373 ATATGGGCAAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGATTGATACTG
1 ATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGATTAATACTG
* * *
14090433 ATATGGGCTAGGCCCAATATA-CTCTGA-TACTGT-A-AGGGCTATGGCCCAGGTTAATATTG
1 ATATGGGCTAGGCCCAATATATCTC-GACT--TGTAATAGGGCTACGGCCCAGATTAATACTG
14090492 ATATGGGCTAAGGCCCA
1 ATATGGGCT-AGGCCCA
14090509 GTTAACACTG
Statistics
Matches: 67, Mismatches: 5, Indels: 8
0.84 0.06 0.10
Matches are distributed among these distances:
59 34 0.51
60 30 0.45
61 3 0.04
ACGTcount: A:0.28, C:0.21, G:0.26, T:0.26
Consensus pattern (60 bp):
ATATGGGCTAGGCCCAATATATCTCGACTTGTAATAGGGCTACGGCCCAGATTAATACTG
Found at i:14090520 original size:27 final size:28
Alignment explanation
Indices: 14090468--14090520 Score: 72
Period size: 28 Copynumber: 1.9 Consensus size: 28
14090458 GATACTGTAA
* * *
14090468 GGGCTATGGCCCAGGTTAATATTGATAT
1 GGGCTAAGGCCCAGGTTAACACTGATAT
14090496 GGGCTAAGGCCCA-GTTAACACTGAT
1 GGGCTAAGGCCCAGGTTAACACTGAT
14090521 TTCTGAATAG
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
27 10 0.45
28 12 0.55
ACGTcount: A:0.26, C:0.19, G:0.28, T:0.26
Consensus pattern (28 bp):
GGGCTAAGGCCCAGGTTAACACTGATAT
Found at i:14096120 original size:39 final size:39
Alignment explanation
Indices: 14096075--14096200 Score: 171
Period size: 39 Copynumber: 3.2 Consensus size: 39
14096065 TTCAGTGATG
* ** *
14096075 TATATCCAGACTTAGGGTATGCAGGTTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
14096114 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
* * * *
14096153 TATATTCGGACTTAAGGTCCGCAGGCTACGTGCTGGAAA
1 TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
*
14096192 TATGTCCGG
1 TATATCCGG
14096201 GCTAAAGTCC
Statistics
Matches: 77, Mismatches: 10, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
39 77 1.00
ACGTcount: A:0.23, C:0.18, G:0.29, T:0.29
Consensus pattern (39 bp):
TATATCCGGACTTAGGGTCCGCAGGCTATGTGCTGGAAT
Found at i:14096214 original size:39 final size:39
Alignment explanation
Indices: 14096095--14096218 Score: 133
Period size: 39 Copynumber: 3.2 Consensus size: 39
14096085 CTTAGGGTAT
* * * **
14096095 GCAGGTTATGTGCTGGAATTATATCCGGACTTAGGGTCC
1 GCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCC
* * * *
14096134 GCAGGCTATGTGCTGGAATTATATTCGGACTTAAGGTCC
1 GCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCC
* *
14096173 GCAGGCTACGTGCTGGAAATATGTCCGGGC-TAAAGTCCC
1 GCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGT-CC
14096212 GCAGGCT
1 GCAGGCT
14096219 TCGAGATGGT
Statistics
Matches: 75, Mismatches: 9, Indels: 2
0.87 0.10 0.02
Matches are distributed among these distances:
38 5 0.07
39 70 0.93
ACGTcount: A:0.22, C:0.21, G:0.31, T:0.27
Consensus pattern (39 bp):
GCAGGCTACGTGCTGGAAATATATCCGGACTTAAAGTCC
Found at i:14113413 original size:25 final size:25
Alignment explanation
Indices: 14113379--14113427 Score: 89
Period size: 25 Copynumber: 2.0 Consensus size: 25
14113369 TAAAACACGC
14113379 ACCGCTCTTCATTCGGCACTCTCCG
1 ACCGCTCTTCATTCGGCACTCTCCG
*
14113404 ACCGCTCTTCATTCGGTACTCTCC
1 ACCGCTCTTCATTCGGCACTCTCC
14113428 AAAGTGGAAT
Statistics
Matches: 23, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.12, C:0.43, G:0.14, T:0.31
Consensus pattern (25 bp):
ACCGCTCTTCATTCGGCACTCTCCG
Found at i:14115270 original size:38 final size:38
Alignment explanation
Indices: 14115219--14115296 Score: 138
Period size: 38 Copynumber: 2.1 Consensus size: 38
14115209 TGTGTCACAC
14115219 ACGGCCTAGACACATGCCCATGTGTCTACCCGTGTAGA
1 ACGGCCTAGACACATGCCCATGTGTCTACCCGTGTAGA
* *
14115257 ACGGCCTAGACACATGCCCGTGTGTCTACCCTTGTAGA
1 ACGGCCTAGACACATGCCCATGTGTCTACCCGTGTAGA
14115295 AC
1 AC
14115297 TTTTTTAGAG
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
38 38 1.00
ACGTcount: A:0.23, C:0.32, G:0.23, T:0.22
Consensus pattern (38 bp):
ACGGCCTAGACACATGCCCATGTGTCTACCCGTGTAGA
Found at i:14122978 original size:40 final size:40
Alignment explanation
Indices: 14122941--14123165 Score: 278
Period size: 40 Copynumber: 5.7 Consensus size: 40
14122931 GCTACTCGTT
* *
14122941 CAAATGCCTTCGGGACATAGCCCGG-TTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATT-TAGTAACTCGCA
14122981 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
*
14123021 CCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
* * *
14123061 CCAATGCCTTCGGG-CTTAGCCCGGAATTAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
** * * * *
14123100 CAAATGCCTTC-GGATCTTAGTCCGGATATGGTCACTTAGCA
1 CAAATGCCTTCGGGA-CTTAACCCGGATTTAGTAAC-TCGCA
*
14123141 CAAA-GCCTTCGGGACTTAGCCCGGA
1 CAAATGCCTTCGGGACTTAACCCGGA
14123166 CATCATTCGA
Statistics
Matches: 167, Mismatches: 13, Indels: 10
0.88 0.07 0.05
Matches are distributed among these distances:
38 2 0.01
39 33 0.20
40 119 0.71
41 13 0.08
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCA
Found at i:14123125 original size:119 final size:120
Alignment explanation
Indices: 14122943--14123165 Score: 301
Period size: 119 Copynumber: 1.9 Consensus size: 120
14122933 TACTCGTTCA
*
14122943 AATGCCTTCGGGACATAGCCCGGTTATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
1 AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
* * *
14123008 TTAGTAAC-TCGCACCAATGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
66 ATAGTAACTTAGCA-CAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
* **
14123063 AATGCCTTCGGG-CTTAGCCCGGA-ATTAGTAACTCGCACAAATGCCTTC-GGATCTTAGTCCGG
1 AATGCCTTCGGGACATAGCCCGGATA-TAGTAACTCGCACAAATGCCTTCGGGA-CTTAACCCGG
* * *
14123125 ATATGGTCACTTAGCACAAAGCCTTCGGGACTTAGCCCGGA
64 ATATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGA
14123166 CATCATTCGA
Statistics
Matches: 90, Mismatches: 10, Indels: 7
0.84 0.09 0.07
Matches are distributed among these distances:
118 4 0.04
119 70 0.78
120 16 0.18
ACGTcount: A:0.25, C:0.28, G:0.22, T:0.24
Consensus pattern (120 bp):
AATGCCTTCGGGACATAGCCCGGATATAGTAACTCGCACAAATGCCTTCGGGACTTAACCCGGAT
ATAGTAACTTAGCACAAAGCCTTCGGGACTTAACCCGGATTTAGTAACTCGCACC
Found at i:14124362 original size:56 final size:56
Alignment explanation
Indices: 14124295--14124414 Score: 231
Period size: 56 Copynumber: 2.1 Consensus size: 56
14124285 TATTAGTTTA
14124295 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
*
14124351 TTGCCCATGCTTCTTATTTTATTTTTCCATTAACACAACATGTTTCATGACATGTT
1 TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
14124407 TTGCCCAT
1 TTGCCCAT
14124415 CATCCCTTGT
Statistics
Matches: 63, Mismatches: 1, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
56 63 1.00
ACGTcount: A:0.23, C:0.23, G:0.09, T:0.45
Consensus pattern (56 bp):
TTGCCCATGCTTCTTATTTTATTCTTCCATTAACACAACATGTTTCATGACATGTT
Found at i:14130798 original size:39 final size:40
Alignment explanation
Indices: 14130673--14130818 Score: 140
Period size: 40 Copynumber: 3.7 Consensus size: 40
14130663 AGCACTCGTT
* *
14130673 CAAATGCCTTCGGGACATAGCCCG-GTTATAGTAACTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATT-TAGTAACTCGCA
* * *
14130713 CAAAT-CTTTTCGGGACTTAACCC-AGATTTAGTAACTCGCG
1 CAAATGC-CTTCGGGACTTAGCCCGA-ATTTAGTAACTCGCA
* * *
14130753 CCAATGCCTTCGGG-CTTAGCCCGAAATTAGTATCTCGCA
1 CAAATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCA
*
14130792 CAAATGCCTTC-GGACTTATGGCCGAAT
1 CAAATGCCTTCGGGACTTA-GCCCGAAT
14130819 ATGACAAGGA
Statistics
Matches: 85, Mismatches: 14, Indels: 14
0.75 0.12 0.12
Matches are distributed among these distances:
38 2 0.02
39 34 0.40
40 46 0.54
41 3 0.04
ACGTcount: A:0.26, C:0.27, G:0.21, T:0.26
Consensus pattern (40 bp):
CAAATGCCTTCGGGACTTAGCCCGAATTTAGTAACTCGCA
Found at i:14135294 original size:21 final size:21
Alignment explanation
Indices: 14135256--14135299 Score: 54
Period size: 21 Copynumber: 2.1 Consensus size: 21
14135246 CTAATCTATT
* *
14135256 AAAATATAAATTACAAACACAA
1 AAAATATAAAATAAAAACA-AA
14135278 AAAATA-AAAATAAAAACAAA
1 AAAATATAAAATAAAAACAAA
14135298 AA
1 AA
14135300 TTTCAATCGC
Statistics
Matches: 20, Mismatches: 2, Indels: 2
0.83 0.08 0.08
Matches are distributed among these distances:
20 4 0.20
21 10 0.50
22 6 0.30
ACGTcount: A:0.77, C:0.09, G:0.00, T:0.14
Consensus pattern (21 bp):
AAAATATAAAATAAAAACAAA
Found at i:14141187 original size:55 final size:56
Alignment explanation
Indices: 14141113--14141224 Score: 217
Period size: 55 Copynumber: 2.0 Consensus size: 56
14141103 GGAACTTTTG
14141113 TAAGTTGAGTTATTTTCAACCATATTAACTCTTAATCAAATAAGAAATTTCATCTT
1 TAAGTTGAGTTATTTTCAACCATATTAACTCTTAATCAAATAAGAAATTTCATCTT
14141169 TAAGTTGAG-TATTTTCAACCATATTAACTCTTAATCAAATAAGAAATTTCATCTT
1 TAAGTTGAGTTATTTTCAACCATATTAACTCTTAATCAAATAAGAAATTTCATCTT
14141224 T
1 T
14141225 CATGTTTGTT
Statistics
Matches: 56, Mismatches: 0, Indels: 1
0.98 0.00 0.02
Matches are distributed among these distances:
55 47 0.84
56 9 0.16
ACGTcount: A:0.38, C:0.14, G:0.07, T:0.41
Consensus pattern (56 bp):
TAAGTTGAGTTATTTTCAACCATATTAACTCTTAATCAAATAAGAAATTTCATCTT
Found at i:14141683 original size:21 final size:21
Alignment explanation
Indices: 14141659--14141699 Score: 82
Period size: 21 Copynumber: 2.0 Consensus size: 21
14141649 GATTCAAAGT
14141659 TTTTTTATTATAATATTTTAA
1 TTTTTTATTATAATATTTTAA
14141680 TTTTTTATTATAATATTTTA
1 TTTTTTATTATAATATTTTA
14141700 GTTATTAAAT
Statistics
Matches: 20, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (21 bp):
TTTTTTATTATAATATTTTAA
Found at i:14142104 original size:22 final size:22
Alignment explanation
Indices: 14142083--14142122 Score: 66
Period size: 20 Copynumber: 1.9 Consensus size: 22
14142073 TATTTTAATT
14142083 TTTATTAAAAA-A-TATAAAAA
1 TTTATTAAAAATACTATAAAAA
14142103 TTTATTAAAAATACTATAAA
1 TTTATTAAAAATACTATAAA
14142123 TACACATCTA
Statistics
Matches: 18, Mismatches: 0, Indels: 2
0.90 0.00 0.10
Matches are distributed among these distances:
20 11 0.61
21 1 0.06
22 6 0.33
ACGTcount: A:0.60, C:0.03, G:0.00, T:0.38
Consensus pattern (22 bp):
TTTATTAAAAATACTATAAAAA
Found at i:14153806 original size:39 final size:39
Alignment explanation
Indices: 14153761--14153959 Score: 380
Period size: 39 Copynumber: 5.1 Consensus size: 39
14153751 ATGCAAGACA
14153761 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
14153800 CTGGAAATGTATCCGGGCTAAAGTCCTGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
14153839 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
14153878 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
*
14153917 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTTGTG
1 CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
14153956 CTGG
1 CTGG
14153960 TAATATAATT
Statistics
Matches: 157, Mismatches: 3, Indels: 0
0.98 0.02 0.00
Matches are distributed among these distances:
39 157 1.00
ACGTcount: A:0.20, C:0.25, G:0.31, T:0.24
Consensus pattern (39 bp):
CTGGAAATGTATCCGGGCTAAAGTCCCGCAGGCTTCGTG
Found at i:14161372 original size:15 final size:15
Alignment explanation
Indices: 14161352--14161405 Score: 63
Period size: 15 Copynumber: 3.3 Consensus size: 15
14161342 ATACTGCAAA
14161352 ATATTTATTATTAAT
1 ATATTTATTATTAAT
14161367 ATATTTATTATTATAAT
1 ATATTTATTA-T-TAAT
*
14161384 AAATATTTATTATTAAA
1 --ATATTTATTATTAAT
14161401 ATATT
1 ATATT
14161406 AATATTGAAT
Statistics
Matches: 34, Mismatches: 1, Indels: 8
0.79 0.02 0.19
Matches are distributed among these distances:
15 15 0.44
16 1 0.03
17 7 0.21
18 1 0.03
19 10 0.29
ACGTcount: A:0.44, C:0.00, G:0.00, T:0.56
Consensus pattern (15 bp):
ATATTTATTATTAAT
Found at i:14161375 original size:19 final size:19
Alignment explanation
Indices: 14161353--14161405 Score: 60
Period size: 17 Copynumber: 3.0 Consensus size: 19
14161343 TACTGCAAAA
14161353 TATTTATTATTAATATATT
1 TATTTATTATTAATATATT
*
14161372 TA-TTATTA-TAATA-A-A
1 TATTTATTATTAATATATT
*
14161387 TATTTATTATTAAAATATT
1 TATTTATTATTAATATATT
14161406 AATATTGAAT
Statistics
Matches: 27, Mismatches: 3, Indels: 8
0.71 0.08 0.21
Matches are distributed among these distances:
15 2 0.07
16 7 0.26
17 9 0.33
18 7 0.26
19 2 0.07
ACGTcount: A:0.43, C:0.00, G:0.00, T:0.57
Consensus pattern (19 bp):
TATTTATTATTAATATATT
Found at i:14161475 original size:14 final size:15
Alignment explanation
Indices: 14161438--14161478 Score: 50
Period size: 14 Copynumber: 2.8 Consensus size: 15
14161428 ATGTGAAGAA
*
14161438 TATTACTTAACATTAT
1 TATTA-TTAAAATTAT
14161454 TATT-TTAAAATT-T
1 TATTATTAAAATTAT
14161467 TATTATTAAAAT
1 TATTATTAAAAT
14161479 AAAATTGAAA
Statistics
Matches: 23, Mismatches: 1, Indels: 4
0.82 0.04 0.14
Matches are distributed among these distances:
13 5 0.22
14 14 0.61
16 4 0.17
ACGTcount: A:0.41, C:0.05, G:0.00, T:0.54
Consensus pattern (15 bp):
TATTATTAAAATTAT
Found at i:14168208 original size:3 final size:3
Alignment explanation
Indices: 14168202--14168239 Score: 76
Period size: 3 Copynumber: 12.7 Consensus size: 3
14168192 TTTATCCTCC
14168202 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
1 TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TAT TA
14168240 AAAGGCGGAG
Statistics
Matches: 35, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (3 bp):
TAT
Found at i:14169847 original size:22 final size:21
Alignment explanation
Indices: 14169817--14169894 Score: 52
Period size: 20 Copynumber: 3.7 Consensus size: 21
14169807 ATTAATCTCA
*
14169817 AATATTATAATTTTTA-ATATT
1 AATAATATAATTTTTATAT-TT
* *
14169838 ATTAAGTATACATATTTATATTT
1 AATAA-TATA-ATTTTTATATTT
**
14169861 AATAATATAATTAAT-TATTT
1 AATAATATAATTTTTATATTT
* *
14169881 AATAAAATTATTTT
1 AATAATATAATTTT
14169895 ACATTAAAAT
Statistics
Matches: 43, Mismatches: 11, Indels: 7
0.70 0.18 0.11
Matches are distributed among these distances:
20 15 0.35
21 6 0.14
22 8 0.19
23 12 0.28
24 2 0.05
ACGTcount: A:0.45, C:0.01, G:0.01, T:0.53
Consensus pattern (21 bp):
AATAATATAATTTTTATATTT
Found at i:14174575 original size:13 final size:13
Alignment explanation
Indices: 14174557--14174582 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
14174547 TTTGATAAAA
14174557 TCCACAATTTATT
1 TCCACAATTTATT
14174570 TCCACAATTTATT
1 TCCACAATTTATT
14174583 ATTATTGTTT
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:0.23, G:0.00, T:0.46
Consensus pattern (13 bp):
TCCACAATTTATT
Found at i:14175463 original size:2 final size:2
Alignment explanation
Indices: 14175458--14175499 Score: 75
Period size: 2 Copynumber: 21.0 Consensus size: 2
14175448 ACAATGTTAG
*
14175458 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT TT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
14175500 TGGTGTAATT
Statistics
Matches: 38, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
2 38 1.00
ACGTcount: A:0.00, C:0.48, G:0.00, T:0.52
Consensus pattern (2 bp):
CT
Found at i:14181656 original size:30 final size:30
Alignment explanation
Indices: 14181620--14181681 Score: 124
Period size: 30 Copynumber: 2.1 Consensus size: 30
14181610 ATAAAACATA
14181620 TAAAAACCATCAAAAATAAATAAGCGGCCT
1 TAAAAACCATCAAAAATAAATAAGCGGCCT
14181650 TAAAAACCATCAAAAATAAATAAGCGGCCT
1 TAAAAACCATCAAAAATAAATAAGCGGCCT
14181680 TA
1 TA
14181682 TTACATTTAA
Statistics
Matches: 32, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
30 32 1.00
ACGTcount: A:0.53, C:0.19, G:0.10, T:0.18
Consensus pattern (30 bp):
TAAAAACCATCAAAAATAAATAAGCGGCCT
Found at i:14182168 original size:27 final size:26
Alignment explanation
Indices: 14182110--14182221 Score: 125
Period size: 27 Copynumber: 4.2 Consensus size: 26
14182100 TGGCTGCCAA
* * *
14182110 AACAAATAATGTGACAGAGTCACCAG
1 AACAGATAATGTGGCAGAGCCACCAG
14182136 ATACAGATAATCGTGGCAGAGCCACCAG
1 A-ACAGATAAT-GTGGCAGAGCCACCAG
*
14182164 AACAGATATATGTGGCAGAGCCACAAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
* * *
14182191 ATCAGATATTTGTGGCATAGCCACCAG
1 AACAGATA-ATGTGGCAGAGCCACCAG
14182218 AACA
1 AACA
14182222 CTTCCTCCAT
Statistics
Matches: 74, Mismatches: 9, Indels: 5
0.84 0.10 0.06
Matches are distributed among these distances:
26 1 0.01
27 56 0.76
28 17 0.23
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.17
Consensus pattern (26 bp):
AACAGATAATGTGGCAGAGCCACCAG
Found at i:14182206 original size:54 final size:54
Alignment explanation
Indices: 14182110--14182221 Score: 145
Period size: 54 Copynumber: 2.1 Consensus size: 54
14182100 TGGCTGCCAA
* *
14182110 AACAAATAATGTGACAGAGTCACCAGATACAGATAATCGTGGCAGAGCCACCAG
1 AACAAATAATGTGACAGAGCCACAAGATACAGATAATCGTGGCAGAGCCACCAG
* * * * *
14182164 AACAGATATATGTGGCAGAGCCACAAGAT-CAGATATTTGTGGCATAGCCACCAG
1 AACAAATA-ATGTGACAGAGCCACAAGATACAGATAATCGTGGCAGAGCCACCAG
14182218 AACA
1 AACA
14182222 CTTCCTCCAT
Statistics
Matches: 50, Mismatches: 7, Indels: 2
0.85 0.12 0.03
Matches are distributed among these distances:
54 33 0.66
55 17 0.34
ACGTcount: A:0.39, C:0.21, G:0.22, T:0.17
Consensus pattern (54 bp):
AACAAATAATGTGACAGAGCCACAAGATACAGATAATCGTGGCAGAGCCACCAG
Found at i:14183869 original size:26 final size:26
Alignment explanation
Indices: 14183760--14183861 Score: 177
Period size: 26 Copynumber: 3.9 Consensus size: 26
14183750 CATGAAATTC
14183760 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
14183786 TTATCATGAAACATTTACCTAACCCA
1 TTATCATGAAACATTTACCTAACCCA
* *
14183812 TTATCATGGAACATTTACCTAACCTA
1 TTATCATGAAACATTTACCTAACCCA
*
14183838 TTATCATGGAACATTTACCTAACC
1 TTATCATGAAACATTTACCTAACC
14183862 TTTTATCAAT
Statistics
Matches: 74, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
26 74 1.00
ACGTcount: A:0.36, C:0.25, G:0.06, T:0.32
Consensus pattern (26 bp):
TTATCATGAAACATTTACCTAACCCA
Found at i:14188620 original size:23 final size:23
Alignment explanation
Indices: 14188590--14188634 Score: 90
Period size: 23 Copynumber: 2.0 Consensus size: 23
14188580 CTAGGCCATG
14188590 CCAAACATGTAGGGTATACTAAA
1 CCAAACATGTAGGGTATACTAAA
14188613 CCAAACATGTAGGGTATACTAA
1 CCAAACATGTAGGGTATACTAA
14188635 CTTAAGCCAC
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 22 1.00
ACGTcount: A:0.42, C:0.18, G:0.18, T:0.22
Consensus pattern (23 bp):
CCAAACATGTAGGGTATACTAAA
Found at i:14203225 original size:27 final size:27
Alignment explanation
Indices: 14203184--14203328 Score: 195
Period size: 27 Copynumber: 5.4 Consensus size: 27
14203174 TGGATAAGTT
**
14203184 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
14203211 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
14203238 GTAGAATTATCGAAA-ACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
14203264 ATAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
14203291 GTAGAATTACCGAGATACCCTTGT-GAG
1 GTAGAATTACCGAAATACCCCTGTAG-G
*
14203318 GTAAAATTACC
1 GTAGAATTACC
14203329 ATTTTGCCCT
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 26 0.24
27 81 0.76
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:14203262 original size:53 final size:54
Alignment explanation
Indices: 14203184--14203328 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 54
14203174 TGGATAAGTT
* *
14203184 GTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCCTGTAGG
*
14203238 GTAGAATTATCGAAA-ACCCCTGTAGGATAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCCTGTAGG
* * * *
14203291 GTAGAATTACCGAGATACCCTTGTGAGG-TAAAATTACC
1 GTAGAATTATCGAAATACCCCTGT-AGGATAGAATTACC
14203329 ATTTTGCCCT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 49 0.60
54 29 0.36
55 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (54 bp):
GTAGAATTATCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCCTGTAGG
Found at i:14204023 original size:27 final size:26
Alignment explanation
Indices: 14203979--14204030 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
14203969 CTCGCTGCAA
14203979 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGGCCTCGCCACA-ATATCTGT
* *
14204006 TCTGGTGGCTTCGTCACAATATCTG
1 TCTGGTGGCCTCGCCACAATATCTG
14204031 GCAACTTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.15, C:0.27, G:0.23, T:0.35
Consensus pattern (26 bp):
TCTGGTGGCCTCGCCACAATATCTGT
Found at i:14204068 original size:67 final size:68
Alignment explanation
Indices: 14203960--14204099 Score: 201
Period size: 67 Copynumber: 2.1 Consensus size: 68
14203950 GAGGAAGCGT
* * * * *
14203960 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC-ATATATCTGTTCTGGTGGCTTCGTCACA
1 TCTGGCAACCTCGCTGCAATCTGGTGGCCTCGCCACAATATATATGTTCTGGTGGCCTAGGCACA
14204024 ATA
66 ATA
* *
14204027 TCTGGCAACTTCGCTGCAATCTGGTGGCTTCGCCACATATATATATGTTCTGGTGGCCTAGGCAC
1 TCTGGCAACCTCGCTGCAATCTGGTGGCCTCGCCACA-ATATATATGTTCTGGTGGCCTAGGCAC
14204092 AATA
65 AATA
14204096 TCTG
1 TCTG
14204100 TATCTGGTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
67 33 0.52
69 31 0.48
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (68 bp):
TCTGGCAACCTCGCTGCAATCTGGTGGCCTCGCCACAATATATATGTTCTGGTGGCCTAGGCACA
ATA
Found at i:14220891 original size:6 final size:6
Alignment explanation
Indices: 14220882--14220991 Score: 73
Period size: 6 Copynumber: 17.8 Consensus size: 6
14220872 AATTAAAATG
* *
14220882 AGAATC AGAATC AGAATC AG-GTGAC AGAATC AGAATC AGAATC AAAATC
1 AGAATC AGAATC AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC
* * * * *
14220931 AAAATT AG-GTGAC AGAATT AGAATC AGAATC AGTATC AGGTAA-C AGAATC
1 AGAATC AGAAT--C AGAATC AGAATC AGAATC AGAATC A-G-AATC AGAATC
*
14220981 AAAATC AGAAT
1 AGAATC AGAAT
14220992 GTGAGTGCAA
Statistics
Matches: 81, Mismatches: 14, Indels: 18
0.72 0.12 0.16
Matches are distributed among these distances:
5 4 0.05
6 66 0.81
7 8 0.10
8 3 0.04
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (6 bp):
AGAATC
Found at i:14220919 original size:31 final size:31
Alignment explanation
Indices: 14220882--14220991 Score: 121
Period size: 31 Copynumber: 3.4 Consensus size: 31
14220872 AATTAAAATG
14220882 AGAATCAGAATCAGAATCAGGTGACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
* *
14220913 AGAATCAGAATCAAAATCAAAATTAGGTGACAGAATT
1 AGAATCAGAATCAGAATC------AGGTGACAGAATC
* *
14220950 AGAATCAGAATCAGTATCAGGTAACAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATC
*
14220981 AAAATCAGAAT
1 AGAATCAGAAT
14220992 GTGAGTGCAA
Statistics
Matches: 66, Mismatches: 7, Indels: 12
0.78 0.08 0.14
Matches are distributed among these distances:
31 38 0.58
37 28 0.42
ACGTcount: A:0.49, C:0.14, G:0.18, T:0.19
Consensus pattern (31 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATC
Found at i:14220923 original size:37 final size:37
Alignment explanation
Indices: 14220882--14220969 Score: 131
Period size: 37 Copynumber: 2.4 Consensus size: 37
14220872 AATTAAAATG
14220882 AGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
* * * *
14220919 AGAATCAAAATCAAAATTAGGTGACAGAATTAGAATC
1 AGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
*
14220956 AGAATCAGTATCAG
1 AGAATCAGAATCAG
14220970 GTAACAGAAT
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
37 44 1.00
ACGTcount: A:0.48, C:0.14, G:0.19, T:0.19
Consensus pattern (37 bp):
AGAATCAGAATCAGAATCAGGTGACAGAATCAGAATC
Found at i:14220991 original size:37 final size:37
Alignment explanation
Indices: 14220870--14220991 Score: 121
Period size: 37 Copynumber: 3.5 Consensus size: 37
14220860 TATCAGAACT
* * *
14220870 AGAATTAAAATGAGAATCAGAATCAGAATCAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
* * * * *
14220907 AGAATCAGAATCAGAATCAAAATCAAAATTAGGTGAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
*
14220944 AGAAT-----T-AGAATCAGAATCAGTATCAGGTAAC
1 AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
14220975 AGAATCAAAATCAGAAT
1 AGAATCAAAATCAGAAT
14220992 GTGAGTGCAA
Statistics
Matches: 68, Mismatches: 11, Indels: 12
0.75 0.12 0.13
Matches are distributed among these distances:
31 25 0.37
32 1 0.01
36 1 0.01
37 41 0.60
ACGTcount: A:0.50, C:0.12, G:0.18, T:0.20
Consensus pattern (37 bp):
AGAATCAAAATCAGAATCAGAATCAGAATCAGGTAAC
Found at i:14221524 original size:27 final size:27
Alignment explanation
Indices: 14221494--14221849 Score: 390
Period size: 27 Copynumber: 13.2 Consensus size: 27
14221484 AACACCCTAG
*
14221494 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
14221521 GGGTAAAACGGTAATTCTT-TAAATCAA
1 GGGTAAAATGGTAATT-TTGTAAATCGA
** *
14221548 GGGTAAAACAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
14221575 GGATAAAATAGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*
14221602 GGGTAAAATGGTAATTTTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
** *
14221629 GGGTAAAACAGTAATTTTGTAAATCAA
1 GGGTAAAATGGTAATTTTGTAAATCGA
14221656 GGGTAAAATGGTAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
** * *
14221683 GGGTAAAACAGTAATTCTATAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
** **
14221710 GGGTAAAATAATAATGCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
14221737 GGGTGAAACGATAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* *
14221764 GGGTAAAATAGTAATTCTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
* * *
14221791 GAGTAAAACGATAATTTTGTAAATCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
*** ** *
14221818 GGGTACTTTGGTAATTTTACAAGTCGA
1 GGGTAAAATGGTAATTTTGTAAATCGA
14221845 GGGTA
1 GGGTA
14221850 TTTCAGTAAT
Statistics
Matches: 277, Mismatches: 50, Indels: 4
0.84 0.15 0.01
Matches are distributed among these distances:
26 1 0.00
27 274 0.99
28 2 0.01
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.30
Consensus pattern (27 bp):
GGGTAAAATGGTAATTTTGTAAATCGA
Found at i:14221599 original size:81 final size:81
Alignment explanation
Indices: 14221494--14221849 Score: 446
Period size: 81 Copynumber: 4.4 Consensus size: 81
14221484 AACACCCTAG
* * *
14221494 GGGTAAAATGGTAATTTTATAAATCGAGGGTAAAACGGTAATTCTTTAAATCAAGGGTAAAACAG
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTTTAAATCGAGGGTAAAACAG
14221559 TAATTCTGTAAATCGA
66 TAATTCTGTAAATCGA
* * **
14221575 GGATAAAATAGTAATTTTGTAAATCGAGGGTAAAATGGTAATT-TTATAAATCGAGGGTAAAACA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTT-TAAATCGAGGGTAAAACA
* *
14221639 GTAATTTTGTAAATCAA
65 GTAATTCTGTAAATCGA
* * *
14221656 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTATAAATCGAGGGTAAAATAA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTTTAAATCGAGGGTAAAACAG
*
14221721 TAATGCTGTAAATCGA
66 TAATTCTGTAAATCGA
* * * * * *
14221737 GGGTGAAACGATAATTTTGTAAATCGAGGGTAAAATAGTAATTCTGTAAATCGAGAGTAAAAC-G
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTTTAAATCGAGGGTAAAACAG
*
14221801 ATAATTTTGTAAATCGA
66 -TAATTCTGTAAATCGA
*** ** *
14221818 GGGTACTTTGGTAATTTTACAAGTCGAGGGTA
1 GGGTAAAATGGTAATTTTGTAAATCGAGGGTA
14221850 TTTCAGTAAT
Statistics
Matches: 236, Mismatches: 36, Indels: 6
0.85 0.13 0.02
Matches are distributed among these distances:
80 2 0.01
81 233 0.99
82 1 0.00
ACGTcount: A:0.40, C:0.07, G:0.22, T:0.30
Consensus pattern (81 bp):
GGGTAAAATGGTAATTTTGTAAATCGAGGGTAAAACAGTAATTCTTTAAATCGAGGGTAAAACAG
TAATTCTGTAAATCGA
Found at i:14221921 original size:27 final size:28
Alignment explanation
Indices: 14221802--14221995 Score: 181
Period size: 27 Copynumber: 7.2 Consensus size: 28
14221792 AGTAAAACGA
** *
14221802 TAATTTTGTAAATC-GAGGGTACTTTGG
1 TAATTTTACAAATCAGAGGGTATTTTGG
* **
14221829 TAATTTTACAAGTC-GAGGGTATTTCAG
1 TAATTTTACAAATCAGAGGGTATTTTGG
** **
14221856 TAATTTTACAGGTC-GAGGGTATTTCAG
1 TAATTTTACAAATCAGAGGGTATTTTGG
*
14221883 TAATTTCACAAATCAGA-GGTATTTTGG
1 TAATTTTACAAATCAGAGGGTATTTTGG
14221910 TAATTTTACAAA-CTAG-GGGTATTTTGG
1 TAATTTTACAAATC-AGAGGGTATTTTGG
*
14221937 TAATTTTATAAA-CTAG-GGGTATTTTGG
1 TAATTTTACAAATC-AGAGGGTATTTTGG
* *
14221964 TAATTTTATAAACCA-AGGGTATTTTGG
1 TAATTTTACAAATCAGAGGGTATTTTGG
14221991 TAATT
1 TAATT
14221996 CTACCCTACA
Statistics
Matches: 148, Mismatches: 14, Indels: 10
0.86 0.08 0.06
Matches are distributed among these distances:
26 1 0.01
27 144 0.97
28 3 0.02
ACGTcount: A:0.30, C:0.08, G:0.22, T:0.40
Consensus pattern (28 bp):
TAATTTTACAAATCAGAGGGTATTTTGG
Found at i:14222007 original size:27 final size:27
Alignment explanation
Indices: 14221977--14222059 Score: 121
Period size: 27 Copynumber: 3.1 Consensus size: 27
14221967 TTTTATAAAC
**
14221977 CAAGGGTATTTTGGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
14222004 CAAGGGTATTTCAGTAATTCTACCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
* * *
14222031 CAAGGGTATTCCAGTAATGCTAGCCTA
1 CAAGGGTATTTCAGTAATTCTACCCTA
14222058 CA
1 CA
14222060 GATATGAGAT
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
27 51 1.00
ACGTcount: A:0.29, C:0.22, G:0.18, T:0.31
Consensus pattern (27 bp):
CAAGGGTATTTCAGTAATTCTACCCTA
Found at i:14239151 original size:13 final size:13
Alignment explanation
Indices: 14239133--14239159 Score: 54
Period size: 13 Copynumber: 2.1 Consensus size: 13
14239123 GAAGTAATCA
14239133 CACACGGGCGTGT
1 CACACGGGCGTGT
14239146 CACACGGGCGTGT
1 CACACGGGCGTGT
14239159 C
1 C
14239160 CCTACCGAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
13 14 1.00
ACGTcount: A:0.15, C:0.33, G:0.37, T:0.15
Consensus pattern (13 bp):
CACACGGGCGTGT
Found at i:14243064 original size:58 final size:58
Alignment explanation
Indices: 14242974--14243089 Score: 214
Period size: 58 Copynumber: 2.0 Consensus size: 58
14242964 GCAGGAATTA
*
14242974 GGAGTAAAAACTCCTTAAACCACCATGACCATTCACTGAAGAGGTAAGTCGAGCTTAG
1 GGAGTAAAAACTCCTCAAACCACCATGACCATTCACTGAAGAGGTAAGTCGAGCTTAG
*
14243032 GGAGTATAAACTCCTCAAACCACCATGACCATTCACTGAAGAGGTAAGTCGAGCTTAG
1 GGAGTAAAAACTCCTCAAACCACCATGACCATTCACTGAAGAGGTAAGTCGAGCTTAG
14243090 ACTATAAATA
Statistics
Matches: 56, Mismatches: 2, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
58 56 1.00
ACGTcount: A:0.35, C:0.23, G:0.21, T:0.21
Consensus pattern (58 bp):
GGAGTAAAAACTCCTCAAACCACCATGACCATTCACTGAAGAGGTAAGTCGAGCTTAG
Found at i:14252653 original size:27 final size:27
Alignment explanation
Indices: 14252612--14252756 Score: 195
Period size: 27 Copynumber: 5.4 Consensus size: 27
14252602 TGGATAAGTT
**
14252612 GTAGAATTATTGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
14252639 GTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
*
14252666 GTAGAATTATCGAAA-ACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
14252692 ATAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTACCGAAATACCCCTGTAGG
* *
14252719 GTAGAATTACCGAGATACCCTTGT-GAG
1 GTAGAATTACCGAAATACCCCTGTAG-G
*
14252746 GTAAAATTACC
1 GTAGAATTACC
14252757 ATTTTGCCCT
Statistics
Matches: 107, Mismatches: 9, Indels: 4
0.89 0.08 0.03
Matches are distributed among these distances:
26 26 0.24
27 81 0.76
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCCTGTAGG
Found at i:14252690 original size:53 final size:54
Alignment explanation
Indices: 14252612--14252756 Score: 204
Period size: 53 Copynumber: 2.7 Consensus size: 54
14252602 TGGATAAGTT
* *
14252612 GTAGAATTATTGAAATACCCCTGTAGGGTAGAATTACCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCCTGTAGG
*
14252666 GTAGAATTATCGAAA-ACCCCTGTAGGATAGAATTATCGAAATACCCCTGTAGG
1 GTAGAATTATCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCCTGTAGG
* * * *
14252719 GTAGAATTACCGAGATACCCTTGTGAGG-TAAAATTACC
1 GTAGAATTATCGAAATACCCCTGT-AGGATAGAATTACC
14252757 ATTTTGCCCT
Statistics
Matches: 81, Mismatches: 8, Indels: 4
0.87 0.09 0.04
Matches are distributed among these distances:
53 49 0.60
54 29 0.36
55 3 0.04
ACGTcount: A:0.34, C:0.19, G:0.21, T:0.26
Consensus pattern (54 bp):
GTAGAATTATCGAAATACCCCTGTAGGATAGAATTACCGAAATACCCCTGTAGG
Found at i:14253451 original size:27 final size:26
Alignment explanation
Indices: 14253407--14253458 Score: 77
Period size: 27 Copynumber: 2.0 Consensus size: 26
14253397 CTCGCTGCAA
14253407 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGGCCTCGCCACA-ATATCTGT
* *
14253434 TCTGGTGGCTTCGTCACAATATCTG
1 TCTGGTGGCCTCGCCACAATATCTG
14253459 GCAACTTCGC
Statistics
Matches: 23, Mismatches: 2, Indels: 1
0.88 0.08 0.04
Matches are distributed among these distances:
26 7 0.30
27 16 0.70
ACGTcount: A:0.15, C:0.27, G:0.23, T:0.35
Consensus pattern (26 bp):
TCTGGTGGCCTCGCCACAATATCTGT
Found at i:14253496 original size:67 final size:68
Alignment explanation
Indices: 14253388--14253527 Score: 201
Period size: 67 Copynumber: 2.1 Consensus size: 68
14253378 GAGGAAGCGT
* * * * *
14253388 TCTGGCAGCCTCGCTGCAATCTGGTGGCCTCGCCAC-ATATATCTGTTCTGGTGGCTTCGTCACA
1 TCTGGCAACCTCGCTGCAATCTGGTGGCCTCGCCACAATATATATGTTCTGGTGGCCTAGGCACA
14253452 ATA
66 ATA
* *
14253455 TCTGGCAACTTCGCTGCAATCTGGTGGCTTCGCCACATATATATATGTTCTGGTGGCCTAGGCAC
1 TCTGGCAACCTCGCTGCAATCTGGTGGCCTCGCCACA-ATATATATGTTCTGGTGGCCTAGGCAC
14253520 AATA
65 AATA
14253524 TCTG
1 TCTG
14253528 TATCTGGTGA
Statistics
Matches: 64, Mismatches: 7, Indels: 2
0.88 0.10 0.03
Matches are distributed among these distances:
67 33 0.52
69 31 0.48
ACGTcount: A:0.19, C:0.27, G:0.24, T:0.31
Consensus pattern (68 bp):
TCTGGCAACCTCGCTGCAATCTGGTGGCCTCGCCACAATATATATGTTCTGGTGGCCTAGGCACA
ATA
Found at i:14261477 original size:30 final size:30
Alignment explanation
Indices: 14261441--14261500 Score: 93
Period size: 30 Copynumber: 2.0 Consensus size: 30
14261431 ATTTAATACG
* *
14261441 AACTTTTGCAAAATTACATTTTTGCCCCTA
1 AACTTTTACAAAATTACACTTTTGCCCCTA
*
14261471 AACTTTTACATAATTACACTTTTGCCCCTA
1 AACTTTTACAAAATTACACTTTTGCCCCTA
14261501 GGCTCGGGAA
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:0.05, T:0.40
Consensus pattern (30 bp):
AACTTTTACAAAATTACACTTTTGCCCCTA
Done.