Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: Chr10 129486693
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: 129486693
ACGTcount: A:0.32, C:0.18, G:0.17, T:0.32
Warning! 305 characters in sequence are not A, C, G, or T
File 178 of 444
Found at i:49640872 original size:21 final size:21
Alignment explanation
Indices: 49640848--49640887 Score: 71
Period size: 21 Copynumber: 1.9 Consensus size: 21
49640838 GAAAAAGGAA
*
49640848 TGAGCTGAAACGAGCTAAATT
1 TGAGCTCAAACGAGCTAAATT
49640869 TGAGCTCAAACGAGCTAAA
1 TGAGCTCAAACGAGCTAAA
49640888 ACGAGCTCAA
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 18 1.00
ACGTcount: A:0.40, C:0.17, G:0.23, T:0.20
Consensus pattern (21 bp):
TGAGCTCAAACGAGCTAAATT
Found at i:49640889 original size:10 final size:10
Alignment explanation
Indices: 49640849--49640914 Score: 51
Period size: 10 Copynumber: 6.5 Consensus size: 10
49640839 AAAAAGGAAT
*
49640849 GAGCTGAAAC
1 GAGCTAAAAC
**
49640859 GAGCTAAATTT
1 GAGCTAAA-AC
*
49640870 GAGCTCAAAC
1 GAGCTAAAAC
49640880 GAGCTAAAAC
1 GAGCTAAAAC
* **
49640890 GAGCTCAAGT
1 GAGCTAAAAC
49640900 GAGCTAAAAC
1 GAGCTAAAAC
*
49640910 AAGCT
1 GAGCT
49640915 CAAGTGAGCT
Statistics
Matches: 41, Mismatches: 14, Indels: 2
0.72 0.25 0.04
Matches are distributed among these distances:
10 34 0.83
11 7 0.17
ACGTcount: A:0.41, C:0.20, G:0.23, T:0.17
Consensus pattern (10 bp):
GAGCTAAAAC
Found at i:49640895 original size:20 final size:20
Alignment explanation
Indices: 49640849--49640917 Score: 75
Period size: 20 Copynumber: 3.4 Consensus size: 20
49640839 AAAAAGGAAT
* **
49640849 GAGCTGAAACGAGCTAAATTT
1 GAGCTCAAACGAGCTAAA-AC
49640870 GAGCTCAAACGAGCTAAAAC
1 GAGCTCAAACGAGCTAAAAC
**
49640890 GAGCTCAAGTGAGCTAAAAC
1 GAGCTCAAACGAGCTAAAAC
*
49640910 AAGCTCAA
1 GAGCTCAA
49640918 GTGAGCTGAT
Statistics
Matches: 42, Mismatches: 6, Indels: 1
0.86 0.12 0.02
Matches are distributed among these distances:
20 25 0.60
21 17 0.40
ACGTcount: A:0.42, C:0.20, G:0.22, T:0.16
Consensus pattern (20 bp):
GAGCTCAAACGAGCTAAAAC
Found at i:49640918 original size:20 final size:20
Alignment explanation
Indices: 49640880--49640924 Score: 81
Period size: 20 Copynumber: 2.2 Consensus size: 20
49640870 GAGCTCAAAC
*
49640880 GAGCTAAAACGAGCTCAAGT
1 GAGCTAAAACAAGCTCAAGT
49640900 GAGCTAAAACAAGCTCAAGT
1 GAGCTAAAACAAGCTCAAGT
49640920 GAGCT
1 GAGCT
49640925 GATGGGAACT
Statistics
Matches: 24, Mismatches: 1, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
20 24 1.00
ACGTcount: A:0.40, C:0.20, G:0.24, T:0.16
Consensus pattern (20 bp):
GAGCTAAAACAAGCTCAAGT
Found at i:49643037 original size:30 final size:29
Alignment explanation
Indices: 49642985--49643045 Score: 70
Period size: 30 Copynumber: 2.1 Consensus size: 29
49642975 TTCAATTTCC
* *
49642985 TTTTCACTCTCAAATTTCTTTTCGTTCTCT
1 TTTTCAATCTCAAATCTCTTTTC-TTCTCT
*
49643015 TTTTCAATCTC-AATCTCATTTTCTTTTCT
1 TTTTCAATCTCAAATCTC-TTTTCTTCTCT
49643044 TT
1 TT
49643046 GTTTTTCTCT
Statistics
Matches: 27, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
29 12 0.44
30 15 0.56
ACGTcount: A:0.15, C:0.25, G:0.02, T:0.59
Consensus pattern (29 bp):
TTTTCAATCTCAAATCTCTTTTCTTCTCT
Found at i:49643060 original size:19 final size:20
Alignment explanation
Indices: 49643036--49643075 Score: 73
Period size: 19 Copynumber: 2.0 Consensus size: 20
49643026 AATCTCATTT
49643036 TCTTTTCTTTGTTT-TTCTC
1 TCTTTTCTTTGTTTCTTCTC
49643055 TCTTTTCTTTGTTTCTTCTC
1 TCTTTTCTTTGTTTCTTCTC
49643075 T
1 T
49643076 TGATTTCATT
Statistics
Matches: 20, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
19 14 0.70
20 6 0.30
ACGTcount: A:0.00, C:0.23, G:0.05, T:0.72
Consensus pattern (20 bp):
TCTTTTCTTTGTTTCTTCTC
Found at i:49644149 original size:17 final size:16
Alignment explanation
Indices: 49644114--49644149 Score: 54
Period size: 16 Copynumber: 2.2 Consensus size: 16
49644104 ATTACAACTT
*
49644114 GAATTTTTTTTAATTC
1 GAATTTTTTTTAATAC
49644130 GAATTTTTTTTAACTAC
1 GAATTTTTTTTAA-TAC
49644147 GAA
1 GAA
49644150 CCTATTTCGA
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 13 0.72
17 5 0.28
ACGTcount: A:0.31, C:0.08, G:0.08, T:0.53
Consensus pattern (16 bp):
GAATTTTTTTTAATAC
Found at i:49652919 original size:13 final size:13
Alignment explanation
Indices: 49652897--49652960 Score: 83
Period size: 13 Copynumber: 4.9 Consensus size: 13
49652887 TTTGGCAATA
*
49652897 CTTTTAAAAAGTG
1 CTTTTGAAAAGTG
49652910 CTTTTGAAAAGTG
1 CTTTTGAAAAGTG
* * *
49652923 CTGTGGAGAAGTG
1 CTTTTGAAAAGTG
*
49652936 CTTTTGAGAAGTG
1 CTTTTGAAAAGTG
49652949 CTTTTGAAAAGT
1 CTTTTGAAAAGT
49652961 TTGGTTTAAA
Statistics
Matches: 44, Mismatches: 7, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
13 44 1.00
ACGTcount: A:0.30, C:0.08, G:0.27, T:0.36
Consensus pattern (13 bp):
CTTTTGAAAAGTG
Found at i:49659641 original size:25 final size:25
Alignment explanation
Indices: 49659607--49659657 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
49659597 TTCCTTATAA
**
49659607 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
49659632 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
49659657 A
1 A
49659658 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:49659656 original size:12 final size:12
Alignment explanation
Indices: 49659610--49659657 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
49659600 CTTATAAACT
49659610 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
49659622 TTCTATTAGGACT
1 TTAAATTAGGA-A
49659635 TTAAATTAGGAA
1 TTAAATTAGGAA
*
49659647 TTAGATTAGGA
1 TTAAATTAGGA
49659658 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:49664309 original size:25 final size:25
Alignment explanation
Indices: 49664275--49664325 Score: 84
Period size: 25 Copynumber: 2.0 Consensus size: 25
49664265 TTCCTTATAA
**
49664275 ACTTTAAATTAGGAATTCTATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
49664300 ACTTTAAATTAGGAATTAGATTAGG
1 ACTTTAAATTAGGAATTAGATTAGG
49664325 A
1 A
49664326 TTTTCCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
25 24 1.00
ACGTcount: A:0.39, C:0.06, G:0.18, T:0.37
Consensus pattern (25 bp):
ACTTTAAATTAGGAATTAGATTAGG
Found at i:49664324 original size:12 final size:12
Alignment explanation
Indices: 49664278--49664325 Score: 51
Period size: 12 Copynumber: 3.9 Consensus size: 12
49664268 CTTATAAACT
49664278 TTAAATTAGGAA
1 TTAAATTAGGAA
** *
49664290 TTCTATTAGGACT
1 TTAAATTAGGA-A
49664303 TTAAATTAGGAA
1 TTAAATTAGGAA
*
49664315 TTAGATTAGGA
1 TTAAATTAGGA
49664326 TTTTCCTTTG
Statistics
Matches: 28, Mismatches: 7, Indels: 2
0.76 0.19 0.05
Matches are distributed among these distances:
12 19 0.68
13 9 0.32
ACGTcount: A:0.40, C:0.04, G:0.19, T:0.38
Consensus pattern (12 bp):
TTAAATTAGGAA
Found at i:49666922 original size:140 final size:138
Alignment explanation
Indices: 49666659--49666928 Score: 305
Period size: 140 Copynumber: 1.9 Consensus size: 138
49666649 TTGAATTATC
* * ***
49666659 TATATTTTATATAATGTTTTATAATTTTTTATTTTATATAATTAATATATTATAATTTTTAAAAA
1 TATATATTATATAATGTTTTATAATTTTTTATTTTAAATAATTAATATATTATAAAAATTAAAAA
* * * * *
49666724 ATTTTAATTTCATAAATTTTAATATATTTTTTGAATTTTTATGTTTTCCGAGTTTATATATATTT
66 ATTTTAACTTAATAAATTTTAATATATTTTTTGAATTTTTATATTTTCAGAGTATATATATATTT
49666789 GTGTTTTT
131 GTGTTTTT
* * *
49666797 TATATATTGTATAATGTCTTTATAATTTTTTTATTTTAAATAATTTATATATTTTTAAAAATT-A
1 TATATATTATATAATGT-TTTATAA-TTTTTTATTTTAAATAATTAATATA-TTATAAAAATTAA
** * *
49666861 AACTTTTTGAACTTAATAAA-TTT-GTATATTTTTTGAATTTTTAATATATTTTAGA-TATATAT
63 AAAATTTT-AACTTAATAAATTTTAATATATTTTTTGAATTTTT-ATAT-TTTCAGAGTATATAT
49666923 ATATTT
125 ATATTT
49666929 TTTGAATTTT
Statistics
Matches: 109, Mismatches: 17, Indels: 10
0.80 0.12 0.07
Matches are distributed among these distances:
138 15 0.14
139 25 0.23
140 48 0.44
141 21 0.19
ACGTcount: A:0.34, C:0.02, G:0.05, T:0.59
Consensus pattern (138 bp):
TATATATTATATAATGTTTTATAATTTTTTATTTTAAATAATTAATATATTATAAAAATTAAAAA
ATTTTAACTTAATAAATTTTAATATATTTTTTGAATTTTTATATTTTCAGAGTATATATATATTT
GTGTTTTT
Found at i:49671942 original size:2 final size:2
Alignment explanation
Indices: 49671937--49671963 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49671927 AAGTTGCATA
49671937 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
49671964 ATTAGCAAAC
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49674013 original size:12 final size:12
Alignment explanation
Indices: 49673998--49674023 Score: 52
Period size: 12 Copynumber: 2.2 Consensus size: 12
49673988 TAGAAGAAAC
49673998 TCTTAACAATTT
1 TCTTAACAATTT
49674010 TCTTAACAATTT
1 TCTTAACAATTT
49674022 TC
1 TC
49674024 GTATCTAAGC
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 14 1.00
ACGTcount: A:0.31, C:0.19, G:0.00, T:0.50
Consensus pattern (12 bp):
TCTTAACAATTT
Found at i:49677257 original size:20 final size:21
Alignment explanation
Indices: 49677232--49677271 Score: 73
Period size: 21 Copynumber: 2.0 Consensus size: 21
49677222 TTCTTGAAAC
49677232 AGGGC-ACACGCTCGTGTGGA
1 AGGGCAACACGCTCGTGTGGA
49677252 AGGGCAACACGCTCGTGTGG
1 AGGGCAACACGCTCGTGTGG
49677272 TCGTTATAAC
Statistics
Matches: 19, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
20 5 0.26
21 14 0.74
ACGTcount: A:0.20, C:0.25, G:0.40, T:0.15
Consensus pattern (21 bp):
AGGGCAACACGCTCGTGTGGA
Found at i:49679234 original size:13 final size:13
Alignment explanation
Indices: 49679216--49679240 Score: 50
Period size: 13 Copynumber: 1.9 Consensus size: 13
49679206 CTAAAAATGC
49679216 AAAAATCATCAAG
1 AAAAATCATCAAG
49679229 AAAAATCATCAA
1 AAAAATCATCAA
49679241 AATCACTTAC
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:0.64, C:0.16, G:0.04, T:0.16
Consensus pattern (13 bp):
AAAAATCATCAAG
Found at i:49680371 original size:21 final size:21
Alignment explanation
Indices: 49680345--49680397 Score: 70
Period size: 21 Copynumber: 2.5 Consensus size: 21
49680335 AGCGGTGGCA
*
49680345 GTGAGATTAGTTACTGTAGCG
1 GTGAGATTAGATACTGTAGCG
* *
49680366 GTGAGATTGGATATTGTAGCG
1 GTGAGATTAGATACTGTAGCG
*
49680387 GTGAGGTTAGA
1 GTGAGATTAGA
49680398 AACAATAGTG
Statistics
Matches: 27, Mismatches: 5, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 27 1.00
ACGTcount: A:0.25, C:0.06, G:0.38, T:0.32
Consensus pattern (21 bp):
GTGAGATTAGATACTGTAGCG
Found at i:49686533 original size:47 final size:47
Alignment explanation
Indices: 49686471--49686689 Score: 195
Period size: 46 Copynumber: 4.7 Consensus size: 47
49686461 TATAATGCCA
* * **
49686471 ATGCCATGTCTCAGACATGGTCTTACACTAGCTCATCTATAAAGTTG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCTTTAAAGCCG
* ** *
49686518 ATGCCATGTCCCAGACATGGTCTTACACT-GACACAT-TTTGTAGTCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAG-CTCATCTTTAAAGCCG
* ** *
49686564 ATG-CATGTCCTAGACAT-GTCTTACACTAGCTTACATC-TCGAGGCCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGC-T-CATCTTTAAAGCCG
*
49686610 ATG-CATGTCCCAGGCAT-GTCTTACACTAGCTC-TCGTCTTAATA-CCG
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATC-T-TTAA-AGCCG
*
49686656 ATGCCATGTCCCAGACATGGTCTTACACTGGCTC
1 ATGCCATGTCCCAGACATGGTCTTACACTAGCTC
49686690 TCATAATGTG
Statistics
Matches: 142, Mismatches: 19, Indels: 21
0.78 0.10 0.12
Matches are distributed among these distances:
43 2 0.01
44 12 0.08
45 15 0.11
46 54 0.38
47 45 0.32
48 14 0.10
ACGTcount: A:0.24, C:0.28, G:0.19, T:0.30
Consensus pattern (47 bp):
ATGCCATGTCCCAGACATGGTCTTACACTAGCTCATCTTTAAAGCCG
Found at i:49686618 original size:46 final size:45
Alignment explanation
Indices: 49686475--49686733 Score: 186
Period size: 46 Copynumber: 5.6 Consensus size: 45
49686465 ATGCCAATGC
* * * * **
49686475 CATGTCTCAGACATGGTCTTACACTAGCTCATC-TATAAAGTTGATG
1 CATGTCCCAGACAT-GTCTTACACTAGCTC-TCATCTGAGGCCGATG
* * * *
49686521 CCATGTCCCAGACATGGTCTTACACT-G-ACACATTTTGTA-GTCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCA-TCTG-AGGCCGATG
*
49686567 CATGTCCTAGACATGTCTTACACTAGCT-TACATCTCGAGGCCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCT-CATCT-GAGGCCGATG
* * * **
49686613 CATGTCCCAGGCATGTCTTACACTAGCTCTCGTCTTAATACCGATG
1 CATGTCCCAGACATGTCTTACACTAGCTCTCATC-TGAGGCCGATG
* * *
49686659 CCATGTCCCAGACATGGTCTTACACTGGCTCTCATAATGTGGCCGATG
1 -CATGTCCCAGACAT-GTCTTACACTAGCTCTCAT-CTGAGGCCGATG
* *
49686707 CATGTCCTAGATATGTCTTACACTAGC
1 CATGTCCCAGACATGTCTTACACTAGC
49686734 ACACAAATAA
Statistics
Matches: 171, Mismatches: 28, Indels: 27
0.76 0.12 0.12
Matches are distributed among these distances:
44 11 0.06
45 18 0.11
46 66 0.39
47 52 0.30
48 24 0.14
ACGTcount: A:0.24, C:0.27, G:0.19, T:0.30
Consensus pattern (45 bp):
CATGTCCCAGACATGTCTTACACTAGCTCTCATCTGAGGCCGATG
Found at i:49686703 original size:94 final size:92
Alignment explanation
Indices: 49686562--49686733 Score: 231
Period size: 94 Copynumber: 1.8 Consensus size: 92
49686552 ATTTTGTAGT
* * *
49686562 CGATGCATGTCCTAGACATGTCTTACACTAGCTTACATCTCGAGGCCGATGCATGTCCCAGGCAT
1 CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATGTCCCAGACAT
49686627 GTCTTACACTAGCTCTCGTCTTAATAC
66 GTCTTACACTAGCTCTCGTCTTAATAC
* * *
49686654 CGATGCCATGTCCCAGACATGGTCTTACACTGGCTCT-CATAAT-GTGGCCGATGCATGTCCTAG
1 CGATG-CATGTCCCAGACAT-GTCTTACACTAGCT-TACAT-ATCGAGGCCGATGCATGTCCCAG
*
49686717 ATATGTCTTACACTAGC
62 ACATGTCTTACACTAGC
49686734 ACACAAATAA
Statistics
Matches: 69, Mismatches: 7, Indels: 6
0.84 0.09 0.07
Matches are distributed among these distances:
92 5 0.07
93 13 0.19
94 49 0.71
95 2 0.03
ACGTcount: A:0.23, C:0.28, G:0.20, T:0.29
Consensus pattern (92 bp):
CGATGCATGTCCCAGACATGTCTTACACTAGCTTACATATCGAGGCCGATGCATGTCCCAGACAT
GTCTTACACTAGCTCTCGTCTTAATAC
Found at i:49689909 original size:33 final size:34
Alignment explanation
Indices: 49689872--49689937 Score: 82
Period size: 34 Copynumber: 2.0 Consensus size: 34
49689862 ATTTTCATCT
*
49689872 CTGATACT-GTACTG-AATTTGGCTAAGGCCCACA
1 CTGATACTAGTACTGTAA-TGGGCTAAGGCCCACA
* *
49689905 CTGATTCTATTACTGTAATGGGCTAAGGCCCAC
1 CTGATACTAGTACTGTAATGGGCTAAGGCCCAC
49689938 GCTATTGTTT
Statistics
Matches: 28, Mismatches: 3, Indels: 3
0.82 0.09 0.09
Matches are distributed among these distances:
33 7 0.25
34 19 0.68
35 2 0.07
ACGTcount: A:0.26, C:0.24, G:0.21, T:0.29
Consensus pattern (34 bp):
CTGATACTAGTACTGTAATGGGCTAAGGCCCACA
Found at i:49692991 original size:42 final size:42
Alignment explanation
Indices: 49692931--49693028 Score: 160
Period size: 42 Copynumber: 2.3 Consensus size: 42
49692921 GAACTCAGTA
* *
49692931 AGTGGTCTGAGTTTGTGATATATGTGGCATCCGAGCTCATTG
1 AGTGGTCTGAGTTCGTGATATATGTGGCATCAGAGCTCATTG
* *
49692973 AGTGGTCTGGGTTCGTGATATATGTGGCATCAGAGCTCGTTG
1 AGTGGTCTGAGTTCGTGATATATGTGGCATCAGAGCTCATTG
49693015 AGTGGTCTGAGTTC
1 AGTGGTCTGAGTTC
49693029 ATAATGGATG
Statistics
Matches: 51, Mismatches: 5, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
42 51 1.00
ACGTcount: A:0.17, C:0.14, G:0.34, T:0.35
Consensus pattern (42 bp):
AGTGGTCTGAGTTCGTGATATATGTGGCATCAGAGCTCATTG
Found at i:49695611 original size:33 final size:33
Alignment explanation
Indices: 49695538--49695602 Score: 105
Period size: 33 Copynumber: 2.0 Consensus size: 33
49695528 GTTATTTCAT
* *
49695538 TGATGAATATTTGAGCTTTGTGATGTTAGTTGA
1 TGATGAAAATTTGAGCTTTGTGATGTTAGATGA
49695571 TGATGAAAATTTGAGCTTTGTGATGTT-GATGA
1 TGATGAAAATTTGAGCTTTGTGATGTTAGATGA
49695603 AATATGAAAG
Statistics
Matches: 30, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
32 4 0.13
33 26 0.87
ACGTcount: A:0.26, C:0.03, G:0.28, T:0.43
Consensus pattern (33 bp):
TGATGAAAATTTGAGCTTTGTGATGTTAGATGA
Found at i:49696097 original size:16 final size:17
Alignment explanation
Indices: 49696060--49696097 Score: 53
Period size: 15 Copynumber: 2.4 Consensus size: 17
49696050 TGTATGAATT
49696060 TATATGCTGAAATTAAA
1 TATATGCTGAAATTAAA
*
49696077 T-TATGC-GAAATTATA
1 TATATGCTGAAATTAAA
49696092 TATATG
1 TATATG
49696098 AAAGTCGAAT
Statistics
Matches: 19, Mismatches: 1, Indels: 3
0.83 0.04 0.13
Matches are distributed among these distances:
15 9 0.47
16 9 0.47
17 1 0.05
ACGTcount: A:0.42, C:0.05, G:0.13, T:0.39
Consensus pattern (17 bp):
TATATGCTGAAATTAAA
Found at i:49696289 original size:43 final size:41
Alignment explanation
Indices: 49696225--49696330 Score: 104
Period size: 43 Copynumber: 2.5 Consensus size: 41
49696215 AGGGGTTCCG
* * *
49696225 ATATGTGTTCTCGTGTGAGACCACGTCCGGGACGCCGGCATCA
1 ATATGTGAT-TCGTGTAAGACCACGTCCGGGACACCGGCAT-A
* * * *
49696268 ATATGTGATTACGTGTAAGACCATGTCTGGGACATCGGCATT
1 ATATGTGATT-CGTGTAAGACCACGTCCGGGACACCGGCATA
* *
49696310 GTATTTGATTCGTGTAAGACC
1 ATATGTGATTCGTGTAAGACC
49696331 CTGTCTGGGA
Statistics
Matches: 53, Mismatches: 9, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
41 11 0.21
42 9 0.17
43 33 0.62
ACGTcount: A:0.23, C:0.21, G:0.27, T:0.29
Consensus pattern (41 bp):
ATATGTGATTCGTGTAAGACCACGTCCGGGACACCGGCATA
Found at i:49702258 original size:40 final size:40
Alignment explanation
Indices: 49702213--49702400 Score: 279
Period size: 40 Copynumber: 4.7 Consensus size: 40
49702203 ATAACCACAA
* *
49702213 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
49702253 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
49702293 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
49702333 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * *
49702373 GCATAAATGCCTTCGGGACTTAGCCCGG
1 GCACAAATGCCTTCGGGTCTTAACCCGG
49702401 GTATCATTCA
Statistics
Matches: 136, Mismatches: 11, Indels: 2
0.91 0.07 0.01
Matches are distributed among these distances:
40 134 0.99
41 2 0.01
ACGTcount: A:0.26, C:0.29, G:0.21, T:0.23
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:49702316 original size:80 final size:79
Alignment explanation
Indices: 49702193--49702404 Score: 318
Period size: 80 Copynumber: 2.7 Consensus size: 79
49702183 TCTTCGGAAT
* *
49702193 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
49702257 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* *
49702272 TTAGCCCGGATATAACAACTCGCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCAC
1 TTAGCCCGGATATAAC-ACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
49702337 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
* * * *
49702352 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTAT
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTAT
49702405 CATTCAATTG
Statistics
Matches: 120, Mismatches: 10, Indels: 5
0.89 0.07 0.04
Matches are distributed among these distances:
79 5 0.04
80 114 0.95
81 1 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:49707800 original size:28 final size:27
Alignment explanation
Indices: 49707737--49707806 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
49707727 ATAGTGAGTC
49707737 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
49707764 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
49707792 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49707807 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:49712330 original size:40 final size:39
Alignment explanation
Indices: 49712219--49712369 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
49712209 TTAATCACGT
* * *
49712219 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
49712259 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
49712299 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
49712339 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
49712370 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:49712353 original size:80 final size:79
Alignment explanation
Indices: 49712219--49712369 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
49712209 TTAATCACGT
*
49712219 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
49712284 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
49712299 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
49712362 CCGGATAT
64 CCGGATAT
49712370 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:49718833 original size:28 final size:27
Alignment explanation
Indices: 49718770--49718839 Score: 122
Period size: 27 Copynumber: 2.6 Consensus size: 27
49718760 ATAGTGAGTC
49718770 CGCACACTTAGTGCTATATAATCAACT
1 CGCACACTTAGTGCTATATAATCAACT
*
49718797 CGCACACTTAGTGCTATATGATCAAACT
1 CGCACACTTAGTGCTATATAATC-AACT
49718825 CGCACACTTAGTGCT
1 CGCACACTTAGTGCT
49718840 GTACAAATTT
Statistics
Matches: 41, Mismatches: 1, Indels: 1
0.95 0.02 0.02
Matches are distributed among these distances:
27 22 0.54
28 19 0.46
ACGTcount: A:0.30, C:0.27, G:0.14, T:0.29
Consensus pattern (27 bp):
CGCACACTTAGTGCTATATAATCAACT
Found at i:49723215 original size:40 final size:40
Alignment explanation
Indices: 49723170--49723362 Score: 271
Period size: 40 Copynumber: 4.8 Consensus size: 40
49723160 ATAACCACAA
* *
49723170 GCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
49723210 GCACAAATGCCTTCGGGTCTTAGCCCGGATATAACAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
*
49723250 ACACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
* *
49723290 GCACAAATGCCTTCGGGTCTTAACCCGGATATAATC-ACTA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAT-AGCAACTC
* * * *
49723330 GCATAAATGCCTTCGGGACTTAGCCCGGGTATA
1 GCACAAATGCCTTCGGGTCTTAACCCGGATATA
49723363 ATTCAATTGC
Statistics
Matches: 138, Mismatches: 14, Indels: 3
0.89 0.09 0.02
Matches are distributed among these distances:
39 1 0.01
40 135 0.98
41 2 0.01
ACGTcount: A:0.27, C:0.28, G:0.21, T:0.24
Consensus pattern (40 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTC
Found at i:49723273 original size:80 final size:79
Alignment explanation
Indices: 49723150--49723362 Score: 313
Period size: 80 Copynumber: 2.7 Consensus size: 79
49723140 TCTTCGGAAT
* *
49723150 TTAG-CCGGATATAACCACAAGCACAATTGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCAC
49723214 AAATGCCTTCGGGTC
65 AAATGCCTTCGGGTC
*
49723229 TTAGCCCGGATATAACAACTCA-CACAAATGCCTTCGGGTCTTAACCCGGATATAGCAACTCGCA
1 TTAGCCCGGATATAAC-ACT-AGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCA
49723293 CAAATGCCTTCGGGTC
64 CAAATGCCTTCGGGTC
* * * *
49723309 TTAACCCGGATATAATCACTAGCATAAATGCCTTCGGGACTTAGCCCGGGTATA
1 TTAGCCCGGATATAA-CACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATA
49723363 ATTCAATTGC
Statistics
Matches: 121, Mismatches: 8, Indels: 9
0.88 0.06 0.07
Matches are distributed among these distances:
79 6 0.05
80 113 0.93
81 2 0.02
ACGTcount: A:0.28, C:0.28, G:0.20, T:0.23
Consensus pattern (79 bp):
TTAGCCCGGATATAACACTAGCACAAATGCCTTCGGGTCTTAACCCGGGTATAGCAACTCGCACA
AATGCCTTCGGGTC
Found at i:49731378 original size:41 final size:42
Alignment explanation
Indices: 49731297--49731388 Score: 109
Period size: 41 Copynumber: 2.2 Consensus size: 42
49731287 TCTGTTACGC
*
49731297 TGGCATCG-ATCTGTGATTACGTGTAAGACCATGTCCGGGACA-
1 TGGCATCGTAT-T-TGATTACGTATAAGACCATGTCCGGGACAG
* *
49731339 TCGGCATCGTATTTGATT-CGTATAAGACCCTGTCTGGGACAG
1 T-GGCATCGTATTTGATTACGTATAAGACCATGTCCGGGACAG
49731381 TGGCATCG
1 TGGCATCG
49731389 ATATGAGATA
Statistics
Matches: 44, Mismatches: 3, Indels: 7
0.81 0.06 0.13
Matches are distributed among these distances:
41 27 0.61
42 7 0.16
43 8 0.18
44 2 0.05
ACGTcount: A:0.22, C:0.22, G:0.28, T:0.28
Consensus pattern (42 bp):
TGGCATCGTATTTGATTACGTATAAGACCATGTCCGGGACAG
Found at i:49733139 original size:2 final size:2
Alignment explanation
Indices: 49733132--49733162 Score: 62
Period size: 2 Copynumber: 15.5 Consensus size: 2
49733122 TATAAAGGAG
49733132 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT AT AT A
49733163 ATTCATATAA
Statistics
Matches: 29, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 29 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49734899 original size:110 final size:110
Alignment explanation
Indices: 49734706--49734925 Score: 413
Period size: 110 Copynumber: 2.0 Consensus size: 110
49734696 TGTGACTATT
49734706 ATAGAATTAAACTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
1 ATAGAATTAAACTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
49734771 AGACGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
66 AGACGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
*
49734816 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
1 ATAGAATTAAACTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
* *
49734881 AGAGGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATTGAGTAG
66 AGACGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
49734926 CCTATCCACA
Statistics
Matches: 107, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
110 107 1.00
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.24
Consensus pattern (110 bp):
ATAGAATTAAACTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
AGACGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
Found at i:49735318 original size:22 final size:22
Alignment explanation
Indices: 49735290--49735333 Score: 79
Period size: 22 Copynumber: 2.0 Consensus size: 22
49735280 GAAGGCATTC
*
49735290 GTGCTGGTGTTATATCTGGGCT
1 GTGCTGGTGTTATATCCGGGCT
49735312 GTGCTGGTGTTATATCCGGGCT
1 GTGCTGGTGTTATATCCGGGCT
49735334 AAGTCCCGAA
Statistics
Matches: 21, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
22 21 1.00
ACGTcount: A:0.09, C:0.16, G:0.36, T:0.39
Consensus pattern (22 bp):
GTGCTGGTGTTATATCCGGGCT
Found at i:49735366 original size:39 final size:39
Alignment explanation
Indices: 49735312--49735418 Score: 151
Period size: 39 Copynumber: 2.7 Consensus size: 39
49735302 TATCTGGGCT
49735312 GTGCTGGTGTTATATCCGGGCTAAGTCCCGAAAGCATTC
1 GTGCTGGTGTTATATCCGGGCTAAGTCCCGAAAGCATTC
* * *
49735351 GTGCTGGTGTTATATCCGGGTTAAGCCCCGAAGGCATTC
1 GTGCTGGTGTTATATCCGGGCTAAGTCCCGAAAGCATTC
* * *
49735390 TTGATGGTGTTATATCCAGGCTAAAGTCC
1 GTGCTGGTGTTATATCCGGGCT-AAGTCC
49735419 TGTAACACCC
Statistics
Matches: 59, Mismatches: 8, Indels: 1
0.87 0.12 0.01
Matches are distributed among these distances:
39 54 0.92
40 5 0.08
ACGTcount: A:0.21, C:0.21, G:0.28, T:0.30
Consensus pattern (39 bp):
GTGCTGGTGTTATATCCGGGCTAAGTCCCGAAAGCATTC
Found at i:49736884 original size:40 final size:40
Alignment explanation
Indices: 49736801--49737008 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
49736791 CGGGATTTAA
* * * * * *
49736801 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
49736841 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
49736881 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
49736921 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
49736961 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
49737001 CCGGATAT
1 CCGGATAT
49737009 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:49736921 original size:80 final size:80
Alignment explanation
Indices: 49736827--49737008 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
49736817 GCTCGATTGT
* * *** * * * **
49736827 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
49736892 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
49736907 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
49736972 TACTAGCATAATTGC
66 AACTAGCACAAATGC
49736987 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
49737009 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:49744929 original size:40 final size:40
Alignment explanation
Indices: 49744846--49745053 Score: 184
Period size: 40 Copynumber: 5.2 Consensus size: 40
49744836 CGGGATTTAA
* * * * * *
49744846 CCGGATATAGCGACTCGCTCGATTGTCTTCGGGACCTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* ** * * *
49744886 CCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAAC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
* * * * *
49744926 CCGGATTTGGTAACTTGCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*
49744966 CCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
*** * * *
49745006 CCGGATATAATTACTAGCA-TAATTGCCTTCGGGACTTAGC
1 CCGGATATAGCAACTCGCACGAA-TGCCTTCGGGTCTTAGC
49745046 CCGGATAT
1 CCGGATAT
49745054 CATTCCAATG
Statistics
Matches: 139, Mismatches: 28, Indels: 2
0.82 0.17 0.01
Matches are distributed among these distances:
39 2 0.01
40 137 0.99
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (40 bp):
CCGGATATAGCAACTCGCACGAATGCCTTCGGGTCTTAGC
Found at i:49744966 original size:80 final size:80
Alignment explanation
Indices: 49744872--49745053 Score: 220
Period size: 80 Copynumber: 2.3 Consensus size: 80
49744862 GCTCGATTGT
* * *** * * * **
49744872 CTTCGGGACCTAGCCCGGTTATAGTGATTCGCACGATTGCCTTCGGGTCTTAACCCGGATTTGGT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
*
49744937 AACTTGCACAAATGC
66 AACTAGCACAAATGC
* *
49744952 CTTCGGGTCTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAGCCCGGATATAAT
1 CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
* * *
49745017 TACTAGCATAATTGC
66 AACTAGCACAAATGC
49745032 CTTCGGGACTTAGCCCGGATAT
1 CTTCGGGACTTAGCCCGGATAT
49745054 CATTCCAATG
Statistics
Matches: 85, Mismatches: 17, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
80 85 1.00
ACGTcount: A:0.22, C:0.26, G:0.24, T:0.28
Consensus pattern (80 bp):
CTTCGGGACTTAGCCCGGATATAACAACTCGCACGAATGCCTTCGGGTCTTAACCCGGATATAAT
AACTAGCACAAATGC
Found at i:49750675 original size:30 final size:31
Alignment explanation
Indices: 49750619--49750681 Score: 92
Period size: 31 Copynumber: 2.1 Consensus size: 31
49750609 CCTTTTCATA
*
49750619 TTTCATATTTCATAATACTAGGCCGAAGCCT
1 TTTCAAATTTCATAATACTAGGCCGAAGCCT
* *
49750650 TTTCAAATTTCATATTAC-GGGCCGAAGCCT
1 TTTCAAATTTCATAATACTAGGCCGAAGCCT
49750680 TT
1 TT
49750682 ACTGTAAACG
Statistics
Matches: 29, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 13 0.45
31 16 0.55
ACGTcount: A:0.27, C:0.22, G:0.14, T:0.37
Consensus pattern (31 bp):
TTTCAAATTTCATAATACTAGGCCGAAGCCT
Found at i:49750922 original size:24 final size:24
Alignment explanation
Indices: 49750889--49750992 Score: 149
Period size: 23 Copynumber: 4.4 Consensus size: 24
49750879 CTGGAGGCCT
* *
49750889 AGCCTCTTTTAATAAGTGGGGCAAA
1 AGCC-CTTTTAATAACTGGGGCATA
*
49750914 AGCCCTTTTAATAATTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
49750938 AGCCC-TTTAATAACTGGGGCATA
1 AGCCCTTTTAATAACTGGGGCATA
*
49750961 AGCCC-TTTAATAACTGGGGCACA
1 AGCCCTTTTAATAACTGGGGCATA
49750984 AGCCCTTTT
1 AGCCCTTTT
49750993 TCACTTCCTC
Statistics
Matches: 74, Mismatches: 4, Indels: 3
0.91 0.05 0.04
Matches are distributed among these distances:
23 44 0.59
24 26 0.35
25 4 0.05
ACGTcount: A:0.29, C:0.21, G:0.21, T:0.29
Consensus pattern (24 bp):
AGCCCTTTTAATAACTGGGGCATA
Found at i:49751070 original size:20 final size:20
Alignment explanation
Indices: 49751042--49751108 Score: 107
Period size: 20 Copynumber: 3.4 Consensus size: 20
49751032 TTATGATTAC
*
49751042 ATCACGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
49751062 ATCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
49751082 GTCATGTGCATATCATACAT
1 ATCATGTGCATATCATACAT
*
49751102 ACCATGT
1 ATCATGT
49751109 TTATCAAAAT
Statistics
Matches: 43, Mismatches: 4, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
20 43 1.00
ACGTcount: A:0.33, C:0.22, G:0.12, T:0.33
Consensus pattern (20 bp):
ATCATGTGCATATCATACAT
Found at i:49758273 original size:29 final size:29
Alignment explanation
Indices: 49758211--49758313 Score: 102
Period size: 29 Copynumber: 3.6 Consensus size: 29
49758201 GTGACGAGAT
* * *
49758211 TGGCACTGAGTGTGCGAGCTTGTAATGTA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* * *
49758240 CGGCACTAAGTGTGCGAGTTTGGACTATA
1 TGGCACTAAGTGTGCGAGCTTGGAATATA
* *
49758269 TGGCACTATGTGTGATG-GCTT-GAATCATA
1 TGGCACTAAGTGTG-CGAGCTTGGAAT-ATA
49758298 TGGCACTAAGTGTGCG
1 TGGCACTAAGTGTGCG
49758314 TGATTGAGTA
Statistics
Matches: 59, Mismatches: 13, Indels: 5
0.77 0.17 0.06
Matches are distributed among these distances:
28 4 0.07
29 54 0.92
30 1 0.02
ACGTcount: A:0.22, C:0.16, G:0.32, T:0.30
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGAGCTTGGAATATA
Found at i:49762710 original size:31 final size:31
Alignment explanation
Indices: 49762669--49762732 Score: 101
Period size: 31 Copynumber: 2.1 Consensus size: 31
49762659 CCTTTTCATA
*
49762669 TTTCATATTTCATAACACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
**
49762700 TTTCAAATTTCATATTACTGGGCCGAAGCCT
1 TTTCAAATTTCATAACACTGGGCCGAAGCCT
49762731 TT
1 TT
49762733 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:0.25, C:0.23, G:0.16, T:0.36
Consensus pattern (31 bp):
TTTCAAATTTCATAACACTGGGCCGAAGCCT
Found at i:49763000 original size:23 final size:23
Alignment explanation
Indices: 49762946--49763064 Score: 193
Period size: 23 Copynumber: 5.1 Consensus size: 23
49762936 CCTAGCCTCT
* *
49762946 TTTAATAAGTGGGGCAAAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
49762969 TTTTAATAACTGGGGCATAAGCCC
1 -TTTAATAACTGGGGCATAAGCCC
49762993 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
49763016 TTTAATAACTGGGGCATAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
* *
49763039 TTTAACAACTGGGGCACAAGCCC
1 TTTAATAACTGGGGCATAAGCCC
49763062 TTT
1 TTT
49763065 TTCACTTCCT
Statistics
Matches: 91, Mismatches: 4, Indels: 1
0.95 0.04 0.01
Matches are distributed among these distances:
23 70 0.77
24 21 0.23
ACGTcount: A:0.30, C:0.22, G:0.22, T:0.26
Consensus pattern (23 bp):
TTTAATAACTGGGGCATAAGCCC
Found at i:49763145 original size:20 final size:20
Alignment explanation
Indices: 49763120--49763181 Score: 106
Period size: 20 Copynumber: 3.1 Consensus size: 20
49763110 ATTACATCAC
49763120 GTGCATATCATACATACCAT
1 GTGCATATCATACATACCAT
**
49763140 GTGCATATCATACATGTCAT
1 GTGCATATCATACATACCAT
49763160 GTGCATATCATACATACCAT
1 GTGCATATCATACATACCAT
49763180 GT
1 GT
49763182 TTATCAAAAT
Statistics
Matches: 38, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 38 1.00
ACGTcount: A:0.32, C:0.23, G:0.13, T:0.32
Consensus pattern (20 bp):
GTGCATATCATACATACCAT
Found at i:49767751 original size:110 final size:110
Alignment explanation
Indices: 49767558--49767777 Score: 431
Period size: 110 Copynumber: 2.0 Consensus size: 110
49767548 TGTGACTATT
49767558 ATAGAATTAAACTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
1 ATAGAATTAAACTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
49767623 AGAGGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
66 AGAGGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
*
49767668 ATAGAATTAAAGTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
1 ATAGAATTAAACTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
49767733 AGAGGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
66 AGAGGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
49767778 CCTATCCACA
Statistics
Matches: 109, Mismatches: 1, Indels: 0
0.99 0.01 0.00
Matches are distributed among these distances:
110 109 1.00
ACGTcount: A:0.46, C:0.09, G:0.21, T:0.24
Consensus pattern (110 bp):
ATAGAATTAAACTTGAGTAAGTAATTAAACAAATTCATTTGTTTAAATTTAAAGCTCAAGAGCAA
AGAGGAACTAAATCAGATAGGGGAAAGGAGAAAGCAATCGAGTAG
Found at i:49768168 original size:39 final size:39
Alignment explanation
Indices: 49768114--49768263 Score: 248
Period size: 39 Copynumber: 3.8 Consensus size: 39
49768104 TAATGAAGAA
*
49768114 TTATATCCGGGCTAAGTCCTGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
49768153 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
* *
49768192 TTATATCCAGGCTAAGTCCCGAAGGCATTCATGCTGGTG
1 TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
*
49768231 TTATATCCGGGTTAAG-CCTCGAAGGCATTCGTG
1 TTATATCCGGGCTAAGTCC-CGAAGGCATTCGTG
49768264 TTATATCCGG
Statistics
Matches: 104, Mismatches: 6, Indels: 2
0.93 0.05 0.02
Matches are distributed among these distances:
38 2 0.02
39 102 0.98
ACGTcount: A:0.20, C:0.22, G:0.29, T:0.29
Consensus pattern (39 bp):
TTATATCCGGGCTAAGTCCCGAAGGCATTCGTGCTGGTG
Found at i:49773952 original size:40 final size:39
Alignment explanation
Indices: 49773841--49773991 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
49773831 TTAATCACGT
* * *
49773841 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
49773881 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
49773921 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
49773961 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
49773992 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:49773975 original size:80 final size:79
Alignment explanation
Indices: 49773841--49773991 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
49773831 TTAATCACGT
*
49773841 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
49773906 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
49773921 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
49773984 CCGGATAT
64 CCGGATAT
49773992 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:49781956 original size:40 final size:39
Alignment explanation
Indices: 49781845--49781995 Score: 142
Period size: 40 Copynumber: 3.8 Consensus size: 39
49781835 TTAATCACGT
* * *
49781845 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTC
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* * *
49781885 GCACGAATGCCTTCGGGCCTTAGCCCGGATATAGCCACTA
1 GCAC-AATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *** *
49781925 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTCCA
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATATAACAACTA
* *
49781965 GCATAATTGTCTTCGGG-CTTAGCCCGGATAT
1 GCACAA-TGCCTTCGGGTCTTAGCCCGGATAT
49781996 CATTCAATTT
Statistics
Matches: 93, Mismatches: 17, Indels: 3
0.82 0.15 0.03
Matches are distributed among these distances:
39 15 0.16
40 78 0.84
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (39 bp):
GCACAATGCCTTCGGGTCTTAGCCCGGATATAACAACTA
Found at i:49781979 original size:80 final size:79
Alignment explanation
Indices: 49781845--49781995 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 79
49781835 TTAATCACGT
*
49781845 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATAACTCGCACGAATGCCTTCGGGCCTTAGCC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGG-CTTAGCC
49781910 CGGATATAGCCACTA
65 CGGATATAGCCACTA
* * ** * *
49781925 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTC-GCACGAA-TGCCTTCGGGCTTAGC
49781988 CCGGATAT
64 CCGGATAT
49781996 CATTCAATTT
Statistics
Matches: 62, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
79 17 0.27
80 45 0.73
ACGTcount: A:0.24, C:0.28, G:0.23, T:0.26
Consensus pattern (79 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATAACTCGCACGAATGCCTTCGGGCTTAGCCC
GGATATAGCCACTA
Found at i:49785885 original size:47 final size:47
Alignment explanation
Indices: 49785815--49786067 Score: 380
Period size: 47 Copynumber: 5.4 Consensus size: 47
49785805 CCCTTCGAGA
* * *
49785815 CTTATCACATTTATACACTTTCACATCCATCACATTGGCCATTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
49785862 CTTATCACATATATACACCTTCACATCCATCACATCGGCCATTAGGT
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
* * * *
49785909 CTTATCTCATATATACACTTTCACATTCATCACGTTGGCCACTCGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
49785956 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTTGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
49786003 CTTATCACATATATACACTTTCACATTCATCACATCGGCCATTAGGC
1 CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
*
49786050 CTTATCACATATACACAC
1 CTTATCACATATATACAC
49786068 CTTGTACATC
Statistics
Matches: 186, Mismatches: 20, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
47 186 1.00
ACGTcount: A:0.28, C:0.31, G:0.08, T:0.33
Consensus pattern (47 bp):
CTTATCACATATATACACTTTCACATTCATCACATTGGCCATTAGGC
Found at i:49785987 original size:25 final size:25
Alignment explanation
Indices: 49785959--49786037 Score: 83
Period size: 25 Copynumber: 3.3 Consensus size: 25
49785949 ACTCGGCCTT
49785959 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
*** ** *
49785984 ATCACAT-TGGCCA-TTTGGCCTT-
1 ATCACATATATACACTTTCACATTC
49786006 ATCACATATATACACTTTCACATTC
1 ATCACATATATACACTTTCACATTC
49786031 ATCACAT
1 ATCACAT
49786038 CGGCCATTAG
Statistics
Matches: 39, Mismatches: 12, Indels: 6
0.68 0.21 0.11
Matches are distributed among these distances:
22 7 0.18
23 9 0.23
24 9 0.23
25 14 0.36
ACGTcount: A:0.32, C:0.28, G:0.05, T:0.35
Consensus pattern (25 bp):
ATCACATATATACACTTTCACATTC
Found at i:49794560 original size:39 final size:40
Alignment explanation
Indices: 49794469--49794682 Score: 285
Period size: 40 Copynumber: 5.4 Consensus size: 40
49794459 GATGATAACG
* * *
49794469 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
49794509 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
49794548 GGGCTAAGTCCCGAAGGCATTTGTGCGA-TTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
* **
49794587 GGGCTAAGTCCCAAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
49794627 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
49794667 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
49794683 TACTTGGTTT
Statistics
Matches: 161, Mismatches: 10, Indels: 7
0.90 0.06 0.04
Matches are distributed among these distances:
38 6 0.04
39 77 0.48
40 78 0.48
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:49794678 original size:118 final size:118
Alignment explanation
Indices: 49794469--49794682 Score: 292
Period size: 118 Copynumber: 1.8 Consensus size: 118
49794459 GATGATAACG
* * * * *
49794469 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTAATTTCGGGCTAAGTCCCGAAGGCATTTGTG
1 GGGCTAAGTCCCAAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAG
* *
49794534 CGAGTTACTAATTCGGGCTAAGTCCCGAAGGCATTTGTGCGATTACTATATCC
66 CGAGTTACTAATTCCGGCTAAATCCCGAAGGCATTTGTGCGATTACTATATCC
49794587 GGGCTAAGTCCCAAAGGCATTTGTGCGAACT-ACT-ATATCCGGGCTAAGTCCCGAAGGCATTTG
1 GGGCTAAGTCCCAAAGGCATTTGTGC-AACTGACTAAT-TCCGGGCTAAGTCCCGAAGGCATTTG
*
49794650 AGCGAG-TAGCT-ATATCCGGTTAAATCCCGAAGG
64 AGCGAGTTA-CTAAT-TCCGGCTAAATCCCGAAGG
49794683 TACTTGGTTT
Statistics
Matches: 84, Mismatches: 8, Indels: 8
0.84 0.08 0.08
Matches are distributed among these distances:
117 6 0.07
118 76 0.90
119 2 0.02
ACGTcount: A:0.25, C:0.22, G:0.27, T:0.26
Consensus pattern (118 bp):
GGGCTAAGTCCCAAAGGCATTTGTGCAACTGACTAATTCCGGGCTAAGTCCCGAAGGCATTTGAG
CGAGTTACTAATTCCGGCTAAATCCCGAAGGCATTTGTGCGATTACTATATCC
Found at i:49802401 original size:92 final size:93
Alignment explanation
Indices: 49802295--49802465 Score: 292
Period size: 92 Copynumber: 1.8 Consensus size: 93
49802285 CGCCCATAAG
*
49802295 CGAACTCGAACTCAACTCAACGAGCTCAGG-CGTTCGCATCCATAAGTGAACTCGGACTCAACT-
1 CGAACTCGAACTCAACTCAACGAGCTC-GGACATTCGCATCCATAAGTGAACTCGGACTCAACTC
49802358 AACGAGTTCGGATGCCTAGTTACATCTCA
65 AACGAGTTCGGATGCCTAGTTACATCTCA
* *
49802387 CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
1 CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
49802452 ACGAGTTCGGATGC
66 ACGAGTTCGGATGC
49802466 TCAACCATCC
Statistics
Matches: 74, Mismatches: 3, Indels: 3
0.93 0.04 0.04
Matches are distributed among these distances:
91 2 0.03
92 57 0.77
93 15 0.20
ACGTcount: A:0.29, C:0.29, G:0.20, T:0.21
Consensus pattern (93 bp):
CGAACTCGAACTCAACTCAACGAGCTCGGACATTCGCATCCATAAGTGAACTCGGACTCAACTCA
ACGAGTTCGGATGCCTAGTTACATCTCA
Found at i:49802460 original size:46 final size:46
Alignment explanation
Indices: 49802288--49802462 Score: 191
Period size: 46 Copynumber: 3.8 Consensus size: 46
49802278 TGTAACCCGC
* * *
49802288 CCATAAGCGAACTCGAACTCAACTCAACGAGCTCAGG-CGTTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTC-GGACATTCGCAT
* *
49802334 CCATAAGTGAACTCGGACTCAACT-AACGAGTTCGGATGCCTAGTT-ACAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA---C-A-TTCGCAT
*
49802383 -C-TCA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
*
49802426 CCATAAGTGAACTCGGACTCAACTCAACGAGTTCGGA
1 CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGA
49802463 TGCTCAACCA
Statistics
Matches: 108, Mismatches: 10, Indels: 22
0.77 0.07 0.16
Matches are distributed among these distances:
42 2 0.02
43 4 0.04
44 4 0.04
45 10 0.09
46 67 0.62
47 14 0.13
48 2 0.02
49 3 0.03
50 2 0.02
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.21
Consensus pattern (46 bp):
CCATAAGCGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCAT
Found at i:49802481 original size:46 final size:44
Alignment explanation
Indices: 49802339--49802481 Score: 132
Period size: 46 Copynumber: 3.1 Consensus size: 44
49802329 CGCATCCATA
49802339 AGTGAACTCGGACTCAACT-AACGAGTTCGGATGCCTAGTTA-CATCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCC-A---ACCATCT
* * * *
49802385 CA-CGAACTCGGACTCAACTCAACGAGTTCGGACATTCGCATCCAT-A
1 -AGTGAACTCGGACTCAACTCAACGAGTTCGG--ATGC-CAACCATCT
49802431 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCTCAACCATCCT
1 AGTGAACTCGGACTCAACTCAACGAGTTCGGATGC-CAACCAT-CT
49802477 AGTGA
1 AGTGA
49802482 CATGTCACTT
Statistics
Matches: 79, Mismatches: 9, Indels: 17
0.75 0.09 0.16
Matches are distributed among these distances:
44 9 0.11
45 1 0.01
46 49 0.62
47 15 0.19
49 4 0.05
50 1 0.01
ACGTcount: A:0.29, C:0.28, G:0.20, T:0.22
Consensus pattern (44 bp):
AGTGAACTCGGACTCAACTCAACGAGTTCGGATGCCAACCATCT
Found at i:49805261 original size:40 final size:40
Alignment explanation
Indices: 49805206--49805421 Score: 296
Period size: 40 Copynumber: 5.4 Consensus size: 40
49805196 GATGATAACG
* * *
49805206 GGGCTAAGTCCCGAAGGCATTTGTGCTAGTGACTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
*
49805246 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTA-ATTTC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATA-TCC
49805286 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
**
49805326 GGGCTAAGTCCCGAAGGCATTTGTGCGAACTACTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
*
49805366 GGGCTAAGTCCCGAAGGCATTTGAGCGAG-TAGCTATATCC
1 GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTA-CTATATCC
* *
49805406 -GGTTAAATCCCGAAGG
1 GGGCTAAGTCCCGAAGG
49805422 TACTTGGTTT
Statistics
Matches: 165, Mismatches: 9, Indels: 5
0.92 0.05 0.03
Matches are distributed among these distances:
39 16 0.10
40 148 0.90
41 1 0.01
ACGTcount: A:0.24, C:0.22, G:0.28, T:0.26
Consensus pattern (40 bp):
GGGCTAAGTCCCGAAGGCATTTGTGCGAGTTACTATATCC
Found at i:49816101 original size:42 final size:41
Alignment explanation
Indices: 49816055--49816159 Score: 113
Period size: 42 Copynumber: 2.5 Consensus size: 41
49816045 TAATCCAACT
* *
49816055 ATGGTCTTACACGAAGTCTCAAATCGATGCCATG-TCCCGGAC
1 ATGGTCTTACACGAAATCTCAAATCGATG-C-TGATCCCAGAC
* * * *
49816097 ATGGTTTTATACGAAATCACATATCGATGCTGCATCCCAGAC
1 ATGGTCTTACACGAAATCTCAAATCGATGCTG-ATCCCAGAC
*
49816139 ATAGTCTTACACGAAATCTCA
1 ATGGTCTTACACGAAATCTCA
49816160 TACTAAAGCC
Statistics
Matches: 51, Mismatches: 10, Indels: 4
0.78 0.15 0.06
Matches are distributed among these distances:
40 2 0.04
41 1 0.02
42 48 0.94
ACGTcount: A:0.30, C:0.26, G:0.17, T:0.27
Consensus pattern (41 bp):
ATGGTCTTACACGAAATCTCAAATCGATGCTGATCCCAGAC
Found at i:49816248 original size:48 final size:48
Alignment explanation
Indices: 49816167--49816259 Score: 134
Period size: 48 Copynumber: 1.9 Consensus size: 48
49816157 TCATACTAAA
* * *
49816167 GCCATATTCCAGATATGGTCTTTCACGTAATCTCATATCGATGCCGAT
1 GCCATATCCCAGATATGGTCTTTCACGGAATCTCATATCAATGCCGAT
*
49816215 GCCATATCCCAGATATGGTCTTAT-ACGGGATCTCATATCAATGCC
1 GCCATATCCCAGATATGGTCTT-TCACGGAATCTCATATCAATGCC
49816260 ATGTCCCAAA
Statistics
Matches: 40, Mismatches: 4, Indels: 2
0.87 0.09 0.04
Matches are distributed among these distances:
48 39 0.98
49 1 0.03
ACGTcount: A:0.26, C:0.26, G:0.17, T:0.31
Consensus pattern (48 bp):
GCCATATCCCAGATATGGTCTTTCACGGAATCTCATATCAATGCCGAT
Found at i:49818180 original size:50 final size:50
Alignment explanation
Indices: 49818061--49818505 Score: 356
Period size: 50 Copynumber: 8.8 Consensus size: 50
49818051 ATTGTGTGAA
* * *** *
49818061 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACTGTTTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA-T-TGTTAGGT
* *
49818113 CACGTGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAAATTGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
** * * ** * * *
49818163 TGCATGTGTAGTACTAAGTGCAGACTACTATGCATACCCA-ATAGTTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTA-CCAGATTG-TTAGGT
** * * * * * *
49818214 CATGTGTGTGGTACTGAGTGCAGGCTACTGCGTGAATCAGATGGTTAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * *
49818264 CACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
** * * * * *
49818314 TGCATGTGTAGTACTAAGTGCAGGCTACTATGCGTACTC-G-TTAACTTCGAT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTAC-CAGATT--GTTAGGT
* * * * * *
49818365 CACATGTGTAGTACTAAGTGCAGGTTACTACGTGTATCAGATGGATAAGC
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
** * * *
49818415 CACATGTGTAGTACTAAGTATAGACTACTACATGTACCAGATTGATAGGT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
* * * *
49818465 CGCATGTGTAGTACTAAGTGCAGGCTATTATGCGTACCAGA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGA
49818506 GAGCTTCAGT
Statistics
Matches: 302, Mismatches: 83, Indels: 18
0.75 0.21 0.04
Matches are distributed among these distances:
49 2 0.01
50 194 0.64
51 71 0.24
52 35 0.12
ACGTcount: A:0.27, C:0.17, G:0.26, T:0.31
Consensus pattern (50 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATTGTTAGGT
Found at i:49818342 original size:151 final size:151
Alignment explanation
Indices: 49818061--49818502 Score: 578
Period size: 151 Copynumber: 2.9 Consensus size: 151
49818051 ATTGTGTGAA
* * ** * *
49818061 CACATGTGTAGTACTATGTGCAGGCTACTATGTGTTTAAGACTGTTTTAGGTCACGTGTGTAGTA
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGAATCAGA-TG-GTTAGGTCACGTGTGTAGTA
* * * *
49818126 CTAAGTGCAGGCTACTACGTGTACCAAATTGTTAGGTTGCATGTGTAGTACTAAGTGCAGACTAC
64 CTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTTGCATGTGTAGTACTAAGTGCAGGCTAC
* **
49818191 TATGCATACCCAATAGTTTCGAT
129 TATGCGTACCCAATAACTTCGAT
** * * *
49818214 CATGTGTGTGGTACTGAGTGCAGGCTACTGCGTGAATCAGATGGTTAGGTCACGTGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGAATCAGATGGTTAGGTCACGTGTGTAGTACT
49818279 AAGTGTAGGCTACTACGTGTACCAGATTGATAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTA
66 AAGTGTAGGCTACTACGTGTACCAGATTGATAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTA
* **
49818344 TGCGTACTCGTTAACTTCGAT
131 TGCGTACCCAATAACTTCGAT
* * * * * *
49818365 CACATGTGTAGTACTAAGTGCAGGTTACTACGTGTATCAGATGGATAAGCCACATGTGTAGTACT
1 CACATGTGTAGTACTAAGTGCAGGCTACTACGTGAATCAGATGGTTAGGTCACGTGTGTAGTACT
* * * * *
49818430 AAGTATAGACTACTACATGTACCAGATTGATAGGTCGCATGTGTAGTACTAAGTGCAGGCTATTA
66 AAGTGTAGGCTACTACGTGTACCAGATTGATAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTA
49818495 TGCGTACC
131 TGCGTACC
49818503 AGAGAGCTTC
Statistics
Matches: 251, Mismatches: 38, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
151 218 0.87
152 2 0.01
153 31 0.12
ACGTcount: A:0.26, C:0.17, G:0.26, T:0.31
Consensus pattern (151 bp):
CACATGTGTAGTACTAAGTGCAGGCTACTACGTGAATCAGATGGTTAGGTCACGTGTGTAGTACT
AAGTGTAGGCTACTACGTGTACCAGATTGATAGGTTGCATGTGTAGTACTAAGTGCAGGCTACTA
TGCGTACCCAATAACTTCGAT
Found at i:49818443 original size:101 final size:101
Alignment explanation
Indices: 49818263--49818444 Score: 256
Period size: 101 Copynumber: 1.8 Consensus size: 101
49818253 GATGGTTAGG
* * * * ***
49818263 TCACGTGTGTAGTACTAAGTGTAGGCTACTACGTGTACCAGATTGATAGGTTGCATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGCCACATGTGTAGTAC
* *
49818328 TAAGTGCAGGCTACTATGCGTACTCGTTAACTTCGA
66 TAAGTACAGACTACTATGCGTACTCGTTAACTTCGA
* *
49818364 TCACATGTGTAGTACTAAGTGCAGGTTACTACGTGTATCAGATGGATAAGCCACATGTGTAGTAC
1 TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGCCACATGTGTAGTAC
*
49818429 TAAGTATAGACTACTA
66 TAAGTACAGACTACTA
49818445 CATGTACCAG
Statistics
Matches: 69, Mismatches: 12, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
101 69 1.00
ACGTcount: A:0.28, C:0.17, G:0.24, T:0.31
Consensus pattern (101 bp):
TCACATGTGTAGTACTAAGTGCAGGCTACTACGTGTACCAGATGGATAAGCCACATGTGTAGTAC
TAAGTACAGACTACTATGCGTACTCGTTAACTTCGA
Found at i:49819370 original size:180 final size:180
Alignment explanation
Indices: 49819061--49819426 Score: 488
Period size: 180 Copynumber: 2.0 Consensus size: 180
49819051 TCATCCTAGA
* * *
49819061 TCTGTACCATGAGATAAATAATTTTTAGTGAAGAAAAAGTAAAATTATTCGATAGTGAAACAAGG
1 TCTGTACCATGAGATAAATAATTTTTAGTGAAGAAAAAGTAAAACTATTAGACAGTGAAACAAGG
** * * * *
49819126 GTATTTTTAATGAATAAACTGTACTTATTGGATAAACCAAAAATTCTAAAAATTTTATGGTAAGA
66 GTAACTTTAATGAAAAAACTGTACTAATTGGATAAACCAAAAATTATAAAAATATTATGGTAAGA
* *
49819191 ATATATGTGAGTCTAGTTTCT-AGGAAAA-TTATCAGTTCTTAATTTAGAGT
131 ATATATGTGAGTCTAGTTTCTGA-GAAAACTAAT-AGATCTTAATTTAGAGT
* * * * * *
49819241 TCTGTATCATGAGATAAATAATTTTTAGTGAAG-AGAGGTCAGAACCT-TTAGACAGTGAAATAG
1 TCTGTACCATGAGATAAATAATTTTTAGTGAAGAAAAAGT-A-AAACTATTAGACAGTGAAACAA
49819304 GGGTAACTTTAATGAAAAAACTGTACTAATTGGATAAACCAAAAATTATAAAAATATTATGGTAA
64 GGGTAACTTTAATGAAAAAACTGTACTAATTGGATAAACCAAAAATTATAAAAATATTATGGTAA
* * *
49819369 GAATATATGTGGGTCTAGTTTCTGAGAAAACTAATAGATCTTAATTTGGTGT
129 GAATATATGTGAGTCTAGTTTCTGAGAAAACTAATAGATCTTAATTTAGAGT
49819421 TCTGTA
1 TCTGTA
49819427 GCTCCAGCTA
Statistics
Matches: 162, Mismatches: 20, Indels: 8
0.85 0.11 0.04
Matches are distributed among these distances:
179 4 0.02
180 151 0.93
181 7 0.04
ACGTcount: A:0.40, C:0.08, G:0.18, T:0.34
Consensus pattern (180 bp):
TCTGTACCATGAGATAAATAATTTTTAGTGAAGAAAAAGTAAAACTATTAGACAGTGAAACAAGG
GTAACTTTAATGAAAAAACTGTACTAATTGGATAAACCAAAAATTATAAAAATATTATGGTAAGA
ATATATGTGAGTCTAGTTTCTGAGAAAACTAATAGATCTTAATTTAGAGT
Found at i:49822224 original size:28 final size:28
Alignment explanation
Indices: 49822182--49822256 Score: 105
Period size: 28 Copynumber: 2.7 Consensus size: 28
49822172 ATCTTCGATG
*
49822182 TCTCGCACACTAAGTTCCATACTCAATA
1 TCTCGCACACTAAGTGCCATACTCAATA
* * *
49822210 TCTCACACACCAAGTGCCATTCTCAATA
1 TCTCGCACACTAAGTGCCATACTCAATA
*
49822238 TTTCGCACACTAAGTGCCA
1 TCTCGCACACTAAGTGCCA
49822257 CATATATATA
Statistics
Matches: 40, Mismatches: 7, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
28 40 1.00
ACGTcount: A:0.31, C:0.33, G:0.09, T:0.27
Consensus pattern (28 bp):
TCTCGCACACTAAGTGCCATACTCAATA
Found at i:49822325 original size:40 final size:40
Alignment explanation
Indices: 49822267--49822342 Score: 116
Period size: 40 Copynumber: 1.9 Consensus size: 40
49822257 CATATATATA
*
49822267 TAGCCAAAGCTATCTCAAATCGCACACAAAGTGCCACATT
1 TAGCCAAAGCTATCTCAAACCGCACACAAAGTGCCACATT
* * *
49822307 TAGCCGAAGCTATTTCAAACCGCACACTAAGTGCCA
1 TAGCCAAAGCTATCTCAAACCGCACACAAAGTGCCA
49822343 TTCTTATCCG
Statistics
Matches: 32, Mismatches: 4, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
40 32 1.00
ACGTcount: A:0.36, C:0.30, G:0.14, T:0.20
Consensus pattern (40 bp):
TAGCCAAAGCTATCTCAAACCGCACACAAAGTGCCACATT
Found at i:49827463 original size:48 final size:48
Alignment explanation
Indices: 49827402--49827919 Score: 901
Period size: 48 Copynumber: 10.8 Consensus size: 48
49827392 ACATATATGA
* *
49827402 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
*
49827450 GATATGTATATGTGATAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
49827498 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
* *
49827546 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATGTATGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
* *
49827594 GATATGTATATGTGGTAAAGTCGAATGGCTAATGTGAAATATATGTTT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
* * * *
49827642 GATATGTATATGTGGTAAAGCCGAATGGCGAATGTGAAATATGTATGA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
49827690 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
* *
49827738 GATATGTATATGTGGTAAAGTCGAATGGCTAATATGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
*
49827786 GATATGTATATGTGGTAAAGCTGAATGGCTAATGTGAAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
*
49827834 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGCAATATATGTGT
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
49827882 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
1 GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAA
49827920 TGTTGTAACA
Statistics
Matches: 442, Mismatches: 28, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
48 442 1.00
ACGTcount: A:0.34, C:0.06, G:0.27, T:0.33
Consensus pattern (48 bp):
GATATGTATATGTGGTAAAGCCGAATGGCTAATGTGAAATATATGTGT
Found at i:49828014 original size:37 final size:37
Alignment explanation
Indices: 49827964--49828072 Score: 191
Period size: 37 Copynumber: 2.9 Consensus size: 37
49827954 GGAAATGTAT
*
49827964 TCCGGGTAAGACCCGATGACTACGTGTAGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
49828001 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
* *
49828038 TCCGGGTAAGACCCGATAACTTCGTGTGGAGATTT
1 TCCGGGTAAGACCCGATGACTACGTGTGGAGATTT
49828073 CGTCTGAGCT
Statistics
Matches: 69, Mismatches: 3, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
37 69 1.00
ACGTcount: A:0.23, C:0.19, G:0.30, T:0.28
Consensus pattern (37 bp):
TCCGGGTAAGACCCGATGACTACGTGTGGAGATTTTG
Found at i:49829358 original size:20 final size:21
Alignment explanation
Indices: 49829319--49829359 Score: 57
Period size: 21 Copynumber: 2.0 Consensus size: 21
49829309 CCTTGTATAA
*
49829319 CTATCATCAAATATTCAAAAT
1 CTATCATCAAACATTCAAAAT
*
49829340 CTATCATTAAACA-TCAAAAT
1 CTATCATCAAACATTCAAAAT
49829360 ACTCATATAT
Statistics
Matches: 18, Mismatches: 2, Indels: 1
0.86 0.10 0.05
Matches are distributed among these distances:
20 7 0.39
21 11 0.61
ACGTcount: A:0.49, C:0.20, G:0.00, T:0.32
Consensus pattern (21 bp):
CTATCATCAAACATTCAAAAT
Found at i:49830504 original size:21 final size:22
Alignment explanation
Indices: 49830480--49830522 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
49830470 GTAATAAGGT
* *
49830480 TATAATTGTAAATTAA-TAAAA
1 TATAATAGTAAAATAATTAAAA
49830501 TATAATAGTAAAATAATTAAAA
1 TATAATAGTAAAATAATTAAAA
49830523 ACAAGTCATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (22 bp):
TATAATAGTAAAATAATTAAAA
Found at i:49833252 original size:29 final size:29
Alignment explanation
Indices: 49833205--49833336 Score: 147
Period size: 29 Copynumber: 4.6 Consensus size: 29
49833195 GTGACGAGAT
*
49833205 TGGCACTAAGCGTGCGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
*
49833234 TGGCACTAAGTGTGTGTGCTGGAAATATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * *
49833263 AGGCACTAAGTGTGCATGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* * ** *
49833292 TGACACTATGTGTGCAAGCTGGAAAAATA
1 TGGCACTAAGTGTGCGTGCTGGAAATATA
* **
49833321 CGGCACTGGGTGTGCG
1 TGGCACTAAGTGTGCG
49833337 AGCTCGAAGG
Statistics
Matches: 88, Mismatches: 15, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
29 88 1.00
ACGTcount: A:0.30, C:0.15, G:0.31, T:0.24
Consensus pattern (29 bp):
TGGCACTAAGTGTGCGTGCTGGAAATATA
Found at i:49840668 original size:68 final size:66
Alignment explanation
Indices: 49840591--49840776 Score: 171
Period size: 67 Copynumber: 2.8 Consensus size: 66
49840581 CATCATGTGT
* * * *
49840591 ACAAGAGAGCTACAAGACATTATGATGTAGCTAGGTCGCATGGGTGATACTA-TG-TGTACACTA
1 ACAAGAGAGCTAC--GACA-TAT-ATGTAGCTAGGTCGCATGCGTGATACTAGTGAAGGACACCA
49840654 TGTAG
62 TGTAG
** * *
49840659 ACAAGAGAGCTACGGGATATATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGT
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACTA-GTGAAGGACACCATGT
49840724 AG
65 AG
* * * * * *
49840726 ACAAGAGAGCTACGAGATAAAT-TGGCTAGGTCACATGGGTGGTACTGAGTG
1 ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACT-AGTG
49840777 TTCACCATGT
Statistics
Matches: 100, Mismatches: 14, Indels: 10
0.81 0.11 0.08
Matches are distributed among these distances:
64 25 0.25
65 3 0.03
66 27 0.27
67 32 0.32
68 13 0.13
ACGTcount: A:0.31, C:0.15, G:0.31, T:0.24
Consensus pattern (66 bp):
ACAAGAGAGCTACGACATATATGTAGCTAGGTCGCATGCGTGATACTAGTGAAGGACACCATGTA
G
Found at i:49840696 original size:64 final size:64
Alignment explanation
Indices: 49840615--49840798 Score: 203
Period size: 67 Copynumber: 2.8 Consensus size: 64
49840605 AGACATTATG
* * * *
49840615 ATGTAGCTAGGTCGCATGGGTGATACTATGTGTACACTATGTAGACAAGAGAGCTACGGGATAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
* * * *
49840679 ATGTAGCTAGGTCGCATGCGTGGTTCTAGGTGAAGGACACCATGTAGACAAGAGAGCTACGAGAT
1 ATGTAGCTAGGTCGCATGGGTGGTACTA--TG-TGTACACCATGTAGACAAGAGAGCTACGAGAT
49840744 AA
63 AA
* * *
49840746 AT-TGGCTAGGTCACATGGGTGGTACTGA-GTGTTCACCATGT-GTACAAGAGAGC
1 ATGTAGCTAGGTCGCATGGGTGGTACT-ATGTGTACACCATGTAG-ACAAGAGAGC
49840799 CGAACTATAT
Statistics
Matches: 100, Mismatches: 15, Indels: 11
0.79 0.12 0.09
Matches are distributed among these distances:
62 1 0.01
63 19 0.19
64 26 0.26
66 22 0.22
67 32 0.32
ACGTcount: A:0.29, C:0.16, G:0.31, T:0.24
Consensus pattern (64 bp):
ATGTAGCTAGGTCGCATGGGTGGTACTATGTGTACACCATGTAGACAAGAGAGCTACGAGATAA
Found at i:49844287 original size:21 final size:22
Alignment explanation
Indices: 49844263--49844305 Score: 61
Period size: 21 Copynumber: 2.0 Consensus size: 22
49844253 GTAATAAGGT
* *
49844263 TATAATTGTAAATTAA-TAAAA
1 TATAATAGTAAAATAATTAAAA
49844284 TATAATAGTAAAATAATTAAAA
1 TATAATAGTAAAATAATTAAAA
49844306 ACAGGTTATC
Statistics
Matches: 19, Mismatches: 2, Indels: 1
0.86 0.09 0.05
Matches are distributed among these distances:
21 14 0.74
22 5 0.26
ACGTcount: A:0.60, C:0.00, G:0.05, T:0.35
Consensus pattern (22 bp):
TATAATAGTAAAATAATTAAAA
Found at i:49846197 original size:40 final size:40
Alignment explanation
Indices: 49846137--49846359 Score: 248
Period size: 40 Copynumber: 5.5 Consensus size: 40
49846127 AATATCTCAT
* * * * *
49846137 ACACTAAGTGGCGTACATAGCCGAAGCTATCTCAAAATGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAACTGC
* * *
49846177 ACACTAAGTGCCATATATAGCCGAAACTATCTCAAATTGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAACTGC
* * * **
49846217 ACATTAAGTGCCATATATAGCCAAAGCTATCTTGATTTCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAACT-GC
* * * *
49846258 ACACTAAGTGTCATATATAGCCAAAGTTATCTCGATCTAGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAACT-GC
* *
49846299 ACACTAAGTGCCATATATAGCCGAAGCTATGTCGAACCGC
1 ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAACTGC
*
49846339 ACACTAAGTGCCACATATAGC
1 ACACTAAGTGCCATATATAGC
49846360 TGATTTGTCA
Statistics
Matches: 158, Mismatches: 24, Indels: 2
0.86 0.13 0.01
Matches are distributed among these distances:
40 89 0.56
41 69 0.44
ACGTcount: A:0.35, C:0.25, G:0.16, T:0.25
Consensus pattern (40 bp):
ACACTAAGTGCCATATATAGCCGAAGCTATCTCGAACTGC
Found at i:49848448 original size:14 final size:14
Alignment explanation
Indices: 49848422--49848459 Score: 58
Period size: 15 Copynumber: 2.6 Consensus size: 14
49848412 TTTCTTACTT
*
49848422 TGTTTATTTTTTCG
1 TGTTTATTTTTCCG
49848436 TGTCTTATTTTTCCG
1 TGT-TTATTTTTCCG
49848451 TGTTTATTT
1 TGTTTATTT
49848460 CTTACTTAAT
Statistics
Matches: 22, Mismatches: 1, Indels: 2
0.88 0.04 0.08
Matches are distributed among these distances:
14 9 0.41
15 13 0.59
ACGTcount: A:0.08, C:0.11, G:0.13, T:0.68
Consensus pattern (14 bp):
TGTTTATTTTTCCG
Found at i:49850535 original size:27 final size:26
Alignment explanation
Indices: 49850501--49850573 Score: 74
Period size: 27 Copynumber: 2.7 Consensus size: 26
49850491 TGGATAAGTT
*
49850501 GTAGAATTATCGAAATACCCCTGTAAG
1 GTAGAATTA-CGAAATACCCCTATAAG
* *
49850528 GTAGAATTACCATAATACCCCTATAGG
1 GTAGAATTACGA-AATACCCCTATAAG
* *
49850555 GAAGAATTACCGAGATACC
1 GTAGAATTA-CGAAATACC
49850574 TTGTGGGGTA
Statistics
Matches: 38, Mismatches: 6, Indels: 4
0.79 0.12 0.08
Matches are distributed among these distances:
26 2 0.05
27 34 0.89
28 2 0.05
ACGTcount: A:0.38, C:0.21, G:0.18, T:0.23
Consensus pattern (26 bp):
GTAGAATTACGAAATACCCCTATAAG
Found at i:49851297 original size:26 final size:27
Alignment explanation
Indices: 49851268--49851327 Score: 77
Period size: 27 Copynumber: 2.3 Consensus size: 27
49851258 CCACATATAT
*
49851268 ATATCTGT-TCTGGTGGCCTAGCCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
* * *
49851294 ATATCTGTATCTGGTGACTTCGTCACA
1 ATATCTGTATCTGGTGACCTAGCCACA
49851321 ATATCTG
1 ATATCTG
49851328 GCAGCTTCGC
Statistics
Matches: 29, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
26 8 0.28
27 21 0.72
ACGTcount: A:0.22, C:0.23, G:0.20, T:0.35
Consensus pattern (27 bp):
ATATCTGTATCTGGTGACCTAGCCACA
Found at i:49857989 original size:27 final size:27
Alignment explanation
Indices: 49857943--49858024 Score: 98
Period size: 26 Copynumber: 3.1 Consensus size: 27
49857933 TGGATAAGTT
* *
49857943 GTAGAATTATC-AAATTCCCTTGTAAGG
1 GTAGAATTACCGAAATACCCTTGT-AGG
49857970 G-AGAATTACCGAAATACCC-TGTAGG
1 GTAGAATTACCGAAATACCCTTGTAGG
* *
49857995 GTAGAATTACCGAGATACCCTTGTGGG
1 GTAGAATTACCGAAATACCCTTGTAGG
49858022 GTA
1 GTA
49858025 AAATCACCAT
Statistics
Matches: 48, Mismatches: 4, Indels: 6
0.83 0.07 0.10
Matches are distributed among these distances:
25 4 0.08
26 28 0.58
27 16 0.33
ACGTcount: A:0.32, C:0.17, G:0.24, T:0.27
Consensus pattern (27 bp):
GTAGAATTACCGAAATACCCTTGTAGG
Found at i:49858726 original size:27 final size:26
Alignment explanation
Indices: 49858682--49858733 Score: 68
Period size: 27 Copynumber: 2.0 Consensus size: 26
49858672 CTCGTTGTAA
*
49858682 TCTGGTGGCCTCGCCACATATATCTGT
1 TCTGGTGACCTCGCCACA-ATATCTGT
* *
49858709 TCTGGTGACTTCGTCACAATATCTG
1 TCTGGTGACCTCGCCACAATATCTG
49858734 GCAGCCTCGC
Statistics
Matches: 22, Mismatches: 3, Indels: 1
0.85 0.12 0.04
Matches are distributed among these distances:
26 7 0.32
27 15 0.68
ACGTcount: A:0.17, C:0.27, G:0.21, T:0.35
Consensus pattern (26 bp):
TCTGGTGACCTCGCCACAATATCTGT
Found at i:49858855 original size:98 final size:98
Alignment explanation
Indices: 49858684--49859042 Score: 632
Period size: 98 Copynumber: 3.7 Consensus size: 98
49858674 CGTTGTAATC
*
49858684 TGGTGGCCTCGCCACATATATCTGT-TCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCA
1 TGGTGGCCTAGCCACA-ATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCA
*
49858748 ATCTAGTGGCTTCACCACATATATATATCTGTTT
65 ATCTGGTGGCTTCACCACATATATATATCTGTTT
49858782 TGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAA
1 TGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAA
49858847 TCTGGTGGCTTCACCACATATATATATCTGTTT
66 TCTGGTGGCTTCACCACATATATATATCTGTTT
* *
49858880 TGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTTGCAGCTTCGCTGCAA
1 TGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAA
*
49858945 TCTGGTGGCTTCACCACATATATATATTTG-TT
66 TCTGGTGGCTTCACCACATATATATATCTGTTT
* *
49858977 TGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTTGCAGCTTCGCTGCAA
1 TGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAA
49859042 T
66 T
49859043 TTCTGTGGTG
Statistics
Matches: 255, Mismatches: 5, Indels: 3
0.97 0.02 0.01
Matches are distributed among these distances:
97 76 0.30
98 179 0.70
ACGTcount: A:0.21, C:0.25, G:0.20, T:0.33
Consensus pattern (98 bp):
TGGTGGCCTAGCCACAATATCTGTATCTGGTGACTTCGTCACAATATCTGGCAGCCTCGCTGCAA
TCTGGTGGCTTCACCACATATATATATCTGTTT
Found at i:49860827 original size:39 final size:39
Alignment explanation
Indices: 49860780--49860962 Score: 240
Period size: 39 Copynumber: 4.6 Consensus size: 39
49860770 AATGTTCGAG
49860780 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
49860819 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
49860858 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
49860897 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * *
49860937 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAG-CCCGAAGGC
49860963 GTTTGAACGA
Statistics
Matches: 126, Mismatches: 17, Indels: 1
0.88 0.12 0.01
Matches are distributed among these distances:
39 88 0.70
40 38 0.30
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:49865611 original size:40 final size:40
Alignment explanation
Indices: 49865566--49865733 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
49865556 CGGAATATAA
49865566 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49865606 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49865646 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
49865686 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
49865726 CCGGATAT
1 CCGGATAT
49865734 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49865716 original size:80 final size:80
Alignment explanation
Indices: 49865582--49865731 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
49865572 ATAATCACGT
*
49865582 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
49865646 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
49865662 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
49865725 CCCGGAT
64 CCCGGAT
49865732 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:49873619 original size:40 final size:40
Alignment explanation
Indices: 49873574--49873741 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
49873564 CGGAATATAA
49873574 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49873614 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49873654 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
49873694 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
49873734 CCGGATAT
1 CCGGATAT
49873742 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49873724 original size:80 final size:80
Alignment explanation
Indices: 49873590--49873739 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
49873580 ATAATCACGT
*
49873590 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
49873654 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
49873670 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
49873733 CCCGGAT
64 CCCGGAT
49873740 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:49877182 original size:15 final size:15
Alignment explanation
Indices: 49877162--49877190 Score: 58
Period size: 15 Copynumber: 1.9 Consensus size: 15
49877152 GTGACGATGT
49877162 TTACATCAACCATGA
1 TTACATCAACCATGA
49877177 TTACATCAACCATG
1 TTACATCAACCATG
49877191 TAATGCTAAT
Statistics
Matches: 14, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 14 1.00
ACGTcount: A:0.38, C:0.28, G:0.07, T:0.28
Consensus pattern (15 bp):
TTACATCAACCATGA
Found at i:49878793 original size:2 final size:2
Alignment explanation
Indices: 49878786--49878812 Score: 54
Period size: 2 Copynumber: 13.5 Consensus size: 2
49878776 GAGACTAGTC
49878786 AT AT AT AT AT AT AT AT AT AT AT AT AT A
1 AT AT AT AT AT AT AT AT AT AT AT AT AT A
49878813 CATGTCATGA
Statistics
Matches: 25, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 25 1.00
ACGTcount: A:0.52, C:0.00, G:0.00, T:0.48
Consensus pattern (2 bp):
AT
Found at i:49889399 original size:51 final size:51
Alignment explanation
Indices: 49889322--49889499 Score: 238
Period size: 52 Copynumber: 3.5 Consensus size: 51
49889312 CGAATACCTG
*
49889322 GTGGCCTGCACATAGTACCATC-CTTGT-AGCCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCA-CACTTGTGA-CCAAAGCTACCTTCTTCACAAA
* *
49889373 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTA-CCTTCTTCACAAA
* * * *
49889425 GTGGCCTTTACATAGTACCGCACTTGTGACC-AAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTACCTTCTTCACAAA
49889474 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
49889500 AGTCACTAGT
Statistics
Matches: 113, Mismatches: 11, Indels: 8
0.86 0.08 0.06
Matches are distributed among these distances:
49 32 0.28
50 1 0.01
51 39 0.35
52 41 0.36
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTACCTTCTTCACAAA
Found at i:49889443 original size:52 final size:51
Alignment explanation
Indices: 49889322--49889499 Score: 247
Period size: 51 Copynumber: 3.5 Consensus size: 51
49889312 CGAATACCTG
* *
49889322 GTGGCCTGCACATAGTACCATC-CTTGT-AGCCAAAGCTACCTTCTTCACAAA
1 GTGGCCTTCACATAGTACCA-CACTTGTGA-CCAAAGCTATCTTCTTCACAAA
*
49889373 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTTTTTCACAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATC-TTCTTCACAAA
* * *
49889425 GTGGCCTTTACATAGTACCGCACTTGTGACC-AAGCTATC-TCTTCTCAAA
1 GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
49889474 GTGGCCTTCACATAGTACCACACTTG
1 GTGGCCTTCACATAGTACCACACTTG
49889500 AGTCACTAGT
Statistics
Matches: 115, Mismatches: 9, Indels: 8
0.87 0.07 0.06
Matches are distributed among these distances:
49 32 0.28
50 1 0.01
51 42 0.37
52 40 0.35
ACGTcount: A:0.26, C:0.29, G:0.16, T:0.29
Consensus pattern (51 bp):
GTGGCCTTCACATAGTACCACACTTGTGACCAAAGCTATCTTCTTCACAAA
Found at i:49896612 original size:40 final size:40
Alignment explanation
Indices: 49896567--49896734 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
49896557 CGGAATATAA
49896567 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49896607 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49896647 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
49896687 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
49896727 CCGGATAT
1 CCGGATAT
49896735 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49896717 original size:80 final size:80
Alignment explanation
Indices: 49896583--49896732 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
49896573 ATAATCACGT
*
49896583 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
49896647 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
49896663 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
49896726 CCCGGAT
64 CCCGGAT
49896733 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:49904615 original size:40 final size:40
Alignment explanation
Indices: 49904570--49904737 Score: 160
Period size: 40 Copynumber: 4.2 Consensus size: 40
49904560 CGGAATATAA
49904570 CCGGATATAATCACGT-GCACAAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCAC-TAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49904610 CCGGATAGAATGTCTCGCACGAATGCCTTCGGGTCTTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
* ** * *
49904650 CCGGATGTAGCCACTAGCACAATTGCCTTCGGGTCTTAAC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
** * * * *
49904690 CCGGATATAATTTCCAGCATAATTGTCTTCGGGAT-TTAGC
1 CCGGATATAATCACTAGCACAAATGCCTTCGGG-TCTTAGC
49904730 CCGGATAT
1 CCGGATAT
49904738 CATTCAATTT
Statistics
Matches: 103, Mismatches: 23, Indels: 4
0.79 0.18 0.03
Matches are distributed among these distances:
39 1 0.01
40 101 0.98
41 1 0.01
ACGTcount: A:0.23, C:0.26, G:0.23, T:0.27
Consensus pattern (40 bp):
CCGGATATAATCACTAGCACAAATGCCTTCGGGTCTTAGC
Found at i:49904720 original size:80 final size:80
Alignment explanation
Indices: 49904586--49904735 Score: 198
Period size: 80 Copynumber: 1.9 Consensus size: 80
49904576 ATAATCACGT
*
49904586 GCACAAATGCCTTCGGGTCTTAGCCCGGATAGAATGTCTCGCACGAATGCCTTCGGG-TCTTAGC
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGAT-TTAGC
49904650 CCGGATGTAGCCACTA
65 CCGGATGTAGCCACTA
* * * * *
49904666 GCACAATTGCCTTCGGGTCTTAACCCGGATATAATTTC-CAGCA-TAATTGTCTTCGGGATTTAG
1 GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTC-GCACGAA-TGCCTTCGGGATTTAG
49904729 CCCGGAT
64 CCCGGAT
49904736 ATCATTCAAT
Statistics
Matches: 61, Mismatches: 6, Indels: 6
0.84 0.08 0.08
Matches are distributed among these distances:
79 3 0.05
80 57 0.93
81 1 0.02
ACGTcount: A:0.22, C:0.27, G:0.24, T:0.27
Consensus pattern (80 bp):
GCACAAATGCCTTCGGGTCTTAACCCGGATAGAATGTCTCGCACGAATGCCTTCGGGATTTAGCC
CGGATGTAGCCACTA
Found at i:49906608 original size:19 final size:18
Alignment explanation
Indices: 49906584--49906671 Score: 65
Period size: 19 Copynumber: 4.8 Consensus size: 18
49906574 CTAGCAACTA
49906584 AATTAACTAAGATGACCTT
1 AATTAACTAAGATGA-CTT
* *
49906603 AATTAACTAACATGA-AT
1 AATTAACTAAGATGACTT
* * *
49906620 AATTTATTCCAGCA--ACTT
1 AATTAACT-AAG-ATGACTT
*
49906638 AATTAACTAAGATGAACTC
1 AATTAACTAAGATG-ACTT
49906657 AATTAACTAAGATGA
1 AATTAACTAAGATGA
49906672 GTATTTTATT
Statistics
Matches: 52, Mismatches: 11, Indels: 13
0.68 0.14 0.17
Matches are distributed among these distances:
16 1 0.02
17 10 0.19
18 9 0.17
19 32 0.62
ACGTcount: A:0.45, C:0.15, G:0.09, T:0.31
Consensus pattern (18 bp):
AATTAACTAAGATGACTT
Found at i:49906621 original size:54 final size:54
Alignment explanation
Indices: 49906563--49906697 Score: 162
Period size: 54 Copynumber: 2.5 Consensus size: 54
49906553 CACATGCATC
* * *
49906563 AATAAATCATTCTAGCAACTAAATTAACTAAGATGACCTTAATTAACTAACATG
1 AATAAATCATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAACATG
* * * *
49906617 AATAATTTATTCCAGCAACTTAATTAACTAAGATGAACTCAATTAACTAAGATG
1 AATAAATCATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAACATG
* ** * *
49906671 AGTATTTTATTCCAGCAACTTAATTAA
1 AATAAATCATTCCAGCAACTAAATTAA
49906698 TTAAACTAAG
Statistics
Matches: 72, Mismatches: 9, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
54 72 1.00
ACGTcount: A:0.44, C:0.16, G:0.08, T:0.33
Consensus pattern (54 bp):
AATAAATCATTCCAGCAACTAAATTAACTAAGATGAACTCAATTAACTAACATG
Found at i:49907927 original size:43 final size:43
Alignment explanation
Indices: 49907866--49907953 Score: 176
Period size: 43 Copynumber: 2.0 Consensus size: 43
49907856 CTTCGCTTAA
49907866 TGATAACTTAGAAAAACTTGTTCCCAGTTTAAACACATGGTTT
1 TGATAACTTAGAAAAACTTGTTCCCAGTTTAAACACATGGTTT
49907909 TGATAACTTAGAAAAACTTGTTCCCAGTTTAAACACATGGTTT
1 TGATAACTTAGAAAAACTTGTTCCCAGTTTAAACACATGGTTT
49907952 TG
1 TG
49907954 TTCACTTGTT
Statistics
Matches: 45, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
43 45 1.00
ACGTcount: A:0.34, C:0.16, G:0.15, T:0.35
Consensus pattern (43 bp):
TGATAACTTAGAAAAACTTGTTCCCAGTTTAAACACATGGTTT
Found at i:49913713 original size:42 final size:42
Alignment explanation
Indices: 49913666--49913799 Score: 241
Period size: 42 Copynumber: 3.2 Consensus size: 42
49913656 GCTCTCGATA
49913666 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
49913708 TAATATATATATCTGGGTTAAATCCCGCAGGCTTCGTGCTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
49913750 TAATATATATATCCGGGTTAAATCCCGCAGGCTTAGTGCTGG
1 TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
*
49913792 TACTATAT
1 TAATATAT
49913800 CCAGACTTAG
Statistics
Matches: 88, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
42 88 1.00
ACGTcount: A:0.25, C:0.19, G:0.22, T:0.33
Consensus pattern (42 bp):
TAATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGG
Found at i:49918109 original size:40 final size:39
Alignment explanation
Indices: 49918026--49918177 Score: 144
Period size: 40 Copynumber: 3.8 Consensus size: 39
49918016 TCGAATGATG
* * * * *
49918026 TCCGGGCTAAGTACCGAAGG-ATTTGTGCTAAGTGACTATA
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGC-GAGTTAATAAA
* *
49918066 TCCGGACTAGGATCCGAAGGCATTCGTGCGAGTTAATAAA
1 TCCGGGCTAAG-TCCGAAGGCATTCGTGCGAGTTAATAAA
* * * *
49918106 TCCGGGCTAAGCCCGAAGGCATTTGTGCAAGTTACTAAA
1 TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
* *
49918145 CCCGGGTTAAGTCCCGAAGGCATTCGTGCGAGT
1 TCCGGGCTAAGT-CCGAAGGCATTCGTGCGAGT
49918178 CACTATAACC
Statistics
Matches: 91, Mismatches: 18, Indels: 6
0.79 0.16 0.05
Matches are distributed among these distances:
39 33 0.36
40 50 0.55
41 8 0.09
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (39 bp):
TCCGGGCTAAGTCCGAAGGCATTCGTGCGAGTTAATAAA
Found at i:49918125 original size:39 final size:40
Alignment explanation
Indices: 49918079--49918217 Score: 147
Period size: 40 Copynumber: 3.5 Consensus size: 40
49918069 GGACTAGGAT
*
49918079 CCGAAGGCATTCGTGCGAGTTAATAAATCCGGGCTAAG-C
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
* * * *
49918118 CCGAAGGCATTTGTGCAAGTTACTAAACCCGGGTTAAGTC
1 CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
* * * **
49918158 CCGAAGGCATTCGTGCGAGTCACTATAA-CCAGGCTTCGTC
1 CCGAAGGCATTCGTGCGAGTTAATA-AACCCGGGCTAAGTC
* *
49918198 CCGAAGGCATTTGAGCGAGT
1 CCGAAGGCATTCGTGCGAGT
49918218 CGTTATATCC
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
39 33 0.39
40 49 0.58
41 2 0.02
ACGTcount: A:0.26, C:0.24, G:0.27, T:0.22
Consensus pattern (40 bp):
CCGAAGGCATTCGTGCGAGTTAATAAACCCGGGCTAAGTC
Found at i:49918169 original size:79 final size:80
Alignment explanation
Indices: 49918026--49918177 Score: 202
Period size: 79 Copynumber: 1.9 Consensus size: 80
49918016 TCGAATGATG
* * *
49918026 TCCGGGCTAAGTACCGAAGGATTTGTGCTAAGTGACTATATCCGGACTAGGATCCGAAGGCATTC
1 TCCGGGCTAAGTACCGAAGGATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
49918091 GTGCGAGTTAATAAA
66 GTGCGAGTTAATAAA
* * **
49918106 TCCGGGCTAAG-CCCGAAGGCATTTGTGC-AAGTTACTAAACCCGGGTTAAG-TCCCGAAGGCAT
1 TCCGGGCTAAGTACCGAAGG-ATTTGTGCTAAGTGACTAAACCCGGACTAAGAT-CCGAAGGCAT
49918168 TCGTGCGAGT
64 TCGTGCGAGT
49918178 CACTATAACC
Statistics
Matches: 63, Mismatches: 7, Indels: 5
0.84 0.09 0.07
Matches are distributed among these distances:
78 1 0.02
79 43 0.68
80 19 0.30
ACGTcount: A:0.26, C:0.22, G:0.28, T:0.24
Consensus pattern (80 bp):
TCCGGGCTAAGTACCGAAGGATTTGTGCTAAGTGACTAAACCCGGACTAAGATCCGAAGGCATTC
GTGCGAGTTAATAAA
Found at i:49926270 original size:39 final size:40
Alignment explanation
Indices: 49926223--49926366 Score: 175
Period size: 39 Copynumber: 3.6 Consensus size: 40
49926213 AATGTTCGAG
49926223 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* * *
49926262 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
* ** *
49926301 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
** * *
49926341 CCATAACCGGGCTATGTCCCGAAGGC
1 TGATATCCGGGCTAAGTCCCGAAGGC
49926367 GTTTGAACGA
Statistics
Matches: 89, Mismatches: 15, Indels: 1
0.85 0.14 0.01
Matches are distributed among these distances:
39 51 0.57
40 38 0.43
ACGTcount: A:0.24, C:0.23, G:0.30, T:0.24
Consensus pattern (40 bp):
TGATATCCGGGCTAAGTCCCGAAGGCAATTGTGCGAGTTA
Found at i:49934099 original size:39 final size:39
Alignment explanation
Indices: 49934052--49934233 Score: 238
Period size: 39 Copynumber: 4.6 Consensus size: 39
49934042 AATGTTCGAG
49934052 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
*
49934091 TGATATCCGGGCTAAGCCCGAAGGCAATTGGGCGAGTTA
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* * *
49934130 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCAAATTG
1 TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
* ** *
49934169 TGATATCCGGGTTAAGTCCCGAAGGCCTTTGTGCGGGTTA
1 TGATATCCGGGCTAAG-CCCGAAGGCAATTGTGCGAGTTA
** * * *
49934209 CCATAACCGGGCTATGTCCGAAGGC
1 TGATATCCGGGCTAAGCCCGAAGGC
49934234 GTTTGAACGA
Statistics
Matches: 124, Mismatches: 18, Indels: 2
0.86 0.12 0.01
Matches are distributed among these distances:
39 96 0.77
40 28 0.23
ACGTcount: A:0.24, C:0.22, G:0.31, T:0.23
Consensus pattern (39 bp):
TGATATCCGGGCTAAGCCCGAAGGCAATTGTGCGAGTTA
Found at i:49935739 original size:40 final size:40
Alignment explanation
Indices: 49935687--49936018 Score: 475
Period size: 40 Copynumber: 8.2 Consensus size: 40
49935677 GATATAATAT
*
49935687 ATATATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
49935727 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* *
49935767 ATATATATCCGGGTTAAATCCCGTAGGCTTCGTGCTAGTAA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A
*
49935808 TATATATATCCGGGTTAAATCCCGCAGGCTTCGTGGTGGTA
1 -ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
*
49935849 ATATATATCCGTGTTAAATCCCGCAGGCTTCGTGCTGGTA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
* **
49935889 ATATATATCCGGGTTAAATCCCGCAGGCTTTGTGCCAGTAA
1 ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A
* * *
49935930 TATATATATTCGGGTTAAATTCCGCAGGCTTCGTGGTGGTA
1 -ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
** *
49935971 ATATTTATATCCGGGTTAAATCTTGCAGGCTTAGTGCTGGTA
1 ATA--TATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
*
49936013 CTATAT
1 ATATAT
49936019 CCGGACTTAG
Statistics
Matches: 261, Mismatches: 25, Indels: 12
0.88 0.08 0.04
Matches are distributed among these distances:
40 155 0.59
41 4 0.02
42 102 0.39
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (40 bp):
ATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTA
Found at i:49935771 original size:82 final size:81
Alignment explanation
Indices: 49935684--49936018 Score: 476
Period size: 82 Copynumber: 4.1 Consensus size: 81
49935674 CTCGATATAA
*
49935684 TATATATATATCCGGGTTAAATCTCGCAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCC
1 TATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCC
49935749 GCAGGCTTCGTGCTGG
66 GCAGGCTTCGTGCTGG
* *
49935765 TA-ATATATATCCGGGTTAAATCCCGTAGGCTTCGTGCTAGTAATATATATATCCGGGTTAAATC
1 TATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGT-A-ATATATATCCGGGTTAAATC
*
49935829 CCGCAGGCTTCGTGGTGG
64 CCGCAGGCTTCGTGCTGG
*
49935847 TA-ATATATATCCGTGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCC
1 TATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCC
* **
49935911 GCAGGCTTTGTGCCAG
66 GCAGGCTTCGTGCTGG
* * *
49935927 TAATATATATATTCGGGTTAAATTCCGCAGGCTTCGTGGTGGTAATATTTATATCCGGGTTAAAT
1 T-ATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATA--TATATCCGGGTTAAAT
** *
49935992 CTTGCAGGCTTAGTGCTGG
63 CCCGCAGGCTTCGTGCTGG
49936011 TACTATAT
1 TA-TATAT
49936019 CCGGACTTAG
Statistics
Matches: 227, Mismatches: 20, Indels: 11
0.88 0.08 0.04
Matches are distributed among these distances:
80 71 0.31
81 5 0.02
82 114 0.50
83 1 0.00
84 36 0.16
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (81 bp):
TATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCC
GCAGGCTTCGTGCTGG
Found at i:49936022 original size:122 final size:122
Alignment explanation
Indices: 49935685--49936018 Score: 535
Period size: 122 Copynumber: 2.7 Consensus size: 122
49935675 TCGATATAAT
*
49935685 ATATATATATCCGGGTTAAA-TCTCGCAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCC
1 ATATATATATCCGGGTTAAATTC-CGCAGGCTTCGTGGTGGTAATATATATCCGGGTTAAATCCC
* *
49935749 GCAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCCGTAGGCTTCGTGCTAGTA
65 GCAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCCAGTA
* *
49935807 ATATATATATCCGGGTTAAATCCCGCAGGCTTCGTGGTGGTAATATATATCCGTGTTAAATCCCG
1 ATATATATATCCGGGTTAAATTCCGCAGGCTTCGTGGTGGTAATATATATCCGGGTTAAATCCCG
*
49935872 CAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCCGCAGGCTTTGTGCCAGTA
66 CAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCCAGTA
* *
49935929 ATATATATATTCGGGTTAAATTCCGCAGGCTTCGTGGTGGTAATATTTATATCCGGGTTAAATCT
1 ATATATATATCCGGGTTAAATTCCGCAGGCTTCGTGGTGGTAATA--TATATCCGGGTTAAATCC
* * *
49935994 TGCAGGCTTAGTGCTGGTACTATAT
64 CGCAGGCTTCGTGCTGGTAATATAT
49936019 CCGGACTTAG
Statistics
Matches: 196, Mismatches: 13, Indels: 4
0.92 0.06 0.02
Matches are distributed among these distances:
122 157 0.80
123 1 0.01
124 38 0.19
ACGTcount: A:0.24, C:0.19, G:0.24, T:0.33
Consensus pattern (122 bp):
ATATATATATCCGGGTTAAATTCCGCAGGCTTCGTGGTGGTAATATATATCCGGGTTAAATCCCG
CAGGCTTCGTGCTGGTAATATATATCCGGGTTAAATCCCGCAGGCTTCGTGCCAGTA
Found at i:49937627 original size:27 final size:27
Alignment explanation
Indices: 49937589--49937640 Score: 86
Period size: 27 Copynumber: 1.9 Consensus size: 27
49937579 AAGTGTATTA
49937589 TACTGGTAGCTTCGCCACATATACTTT
1 TACTGGTAGCTTCGCCACATATACTTT
* *
49937616 TACTGGTGGCTTTGCCACATATACT
1 TACTGGTAGCTTCGCCACATATACT
49937641 GATATTGGCA
Statistics
Matches: 23, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 23 1.00
ACGTcount: A:0.21, C:0.25, G:0.17, T:0.37
Consensus pattern (27 bp):
TACTGGTAGCTTCGCCACATATACTTT
Found at i:49937654 original size:27 final size:26
Alignment explanation
Indices: 49937589--49937682 Score: 82
Period size: 27 Copynumber: 3.6 Consensus size: 26
49937579 AAGTGTATTA
* * *
49937589 TACTGGTAGCTTCGCCACATATACTTT
1 TACTGGCAGCTTTGCCACATATAC-TG
**
49937616 TACTGGTGGCTTTGCCACATATACTG
1 TACTGGCAGCTTTGCCACATATACTG
* **
49937642 ATATTGGCAGCTTTGCTGCA-ATACTG
1 -TACTGGCAGCTTTGCCACATATACTG
*
49937668 TACTGGCAGCCTTGC
1 TACTGGCAGCTTTGC
49937683 TGCAATATTG
Statistics
Matches: 56, Mismatches: 10, Indels: 4
0.80 0.14 0.06
Matches are distributed among these distances:
25 13 0.23
26 7 0.12
27 36 0.64
ACGTcount: A:0.20, C:0.24, G:0.21, T:0.34
Consensus pattern (26 bp):
TACTGGCAGCTTTGCCACATATACTG
Found at i:49937677 original size:25 final size:26
Alignment explanation
Indices: 49937636--49937689 Score: 83
Period size: 25 Copynumber: 2.1 Consensus size: 26
49937626 TTTGCCACAT
* *
49937636 ATACTGATATTGGCAGCTTTGCTGCA
1 ATACTGATACTGGCAGCCTTGCTGCA
49937662 ATACTG-TACTGGCAGCCTTGCTGCA
1 ATACTGATACTGGCAGCCTTGCTGCA
49937687 ATA
1 ATA
49937690 TTGGTGTGTT
Statistics
Matches: 26, Mismatches: 2, Indels: 1
0.90 0.07 0.03
Matches are distributed among these distances:
25 20 0.77
26 6 0.23
ACGTcount: A:0.24, C:0.22, G:0.22, T:0.31
Consensus pattern (26 bp):
ATACTGATACTGGCAGCCTTGCTGCA
Found at i:49937837 original size:107 final size:107
Alignment explanation
Indices: 49937651--49937865 Score: 351
Period size: 107 Copynumber: 2.0 Consensus size: 107
49937641 GATATTGGCA
*
49937651 GCTTTGCTGCAATACTGTACTGGCAGCCTTGCTGCAATATTGGTGTGTTTGCTGGATGGGTCGAC
1 GCTTTGCTGCAATACTGTACTGGCAGCCTTGCTGCAATATTGGTGTGTTGGCTGGATGGGTCGAC
* * *
49937716 TTTTTCCTCACATGGTGTGTTGGTGGTAAGGAGTGGTGTGTT
66 TTTGTCCCCACATGGCGTGTTGGTGGTAAGGAGTGGTGTGTT
* *
49937758 GCTTTGCTG-AGATACTGTACTGGCAGCCTTGCTGCGATATTGGTGTGTTGGCTGGGTGGGTCGA
1 GCTTTGCTGCA-ATACTGTACTGGCAGCCTTGCTGCAATATTGGTGTGTTGGCTGGATGGGTCGA
*
49937822 CTTTGTCCCCACATGGCGTGTTGGTGGTACGGAGTGGTGTGTT
65 CTTTGTCCCCACATGGCGTGTTGGTGGTAAGGAGTGGTGTGTT
49937865 G
1 G
49937866 GCTGGTTTGG
Statistics
Matches: 100, Mismatches: 7, Indels: 2
0.92 0.06 0.02
Matches are distributed among these distances:
106 1 0.01
107 99 0.99
ACGTcount: A:0.13, C:0.17, G:0.35, T:0.35
Consensus pattern (107 bp):
GCTTTGCTGCAATACTGTACTGGCAGCCTTGCTGCAATATTGGTGTGTTGGCTGGATGGGTCGAC
TTTGTCCCCACATGGCGTGTTGGTGGTAAGGAGTGGTGTGTT
Found at i:49944219 original size:27 final size:27
Alignment explanation
Indices: 49944181--49944233 Score: 88
Period size: 27 Copynumber: 2.0 Consensus size: 27
49944171 TATTATACCG
*
49944181 GTGGCTTCGCCACATATACTGTTACTA
1 GTGGCTTCGCCACATATACTGATACTA
*
49944208 GTGGCTTTGCCACATATACTGATACT
1 GTGGCTTCGCCACATATACTGATACT
49944234 GGCAGCTTTG
Statistics
Matches: 24, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
27 24 1.00
ACGTcount: A:0.23, C:0.25, G:0.19, T:0.34
Consensus pattern (27 bp):
GTGGCTTCGCCACATATACTGATACTA
Found at i:49944241 original size:27 final size:27
Alignment explanation
Indices: 49944184--49944243 Score: 75
Period size: 27 Copynumber: 2.2 Consensus size: 27
49944174 TATACCGGTG
* * **
49944184 GCTTCGCCACATATACTGTTACTAGTG
1 GCTTTGCCACATATACTGATACTAGCA
*
49944211 GCTTTGCCACATATACTGATACTGGCA
1 GCTTTGCCACATATACTGATACTAGCA
49944238 GCTTTG
1 GCTTTG
49944244 TTGCGATGCT
Statistics
Matches: 28, Mismatches: 5, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 28 1.00
ACGTcount: A:0.22, C:0.25, G:0.20, T:0.33
Consensus pattern (27 bp):
GCTTTGCCACATATACTGATACTAGCA
Found at i:49945036 original size:14 final size:14
Alignment explanation
Indices: 49945017--49945045 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
49945007 GATCACAGAG
49945017 TAAGAATACTTACT
1 TAAGAATACTTACT
49945031 TAAGAATACTTACT
1 TAAGAATACTTACT
49945045 T
1 T
49945046 TACAATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.41, C:0.14, G:0.07, T:0.38
Consensus pattern (14 bp):
TAAGAATACTTACT
Found at i:49947600 original size:14 final size:13
Alignment explanation
Indices: 49947584--49947609 Score: 52
Period size: 13 Copynumber: 2.0 Consensus size: 13
49947574 TGAAATGATT
49947584 TTTTGAAAATTTC
1 TTTTGAAAATTTC
49947597 TTTTGAAAATTTC
1 TTTTGAAAATTTC
49947610 GACGTTTGGG
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:0.08, T:0.54
Consensus pattern (13 bp):
TTTTGAAAATTTC
Done.